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atp chemical  (Millipore)


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    Structured Review

    Millipore atp chemical
    Atp Chemical, supplied by Millipore, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/atp+chemical/atp+chemical/pm40631926-890-11-12
    Average 90 stars, based on 1 article reviews
    atp chemical - by Bioz Stars, 2026-09
    90/100 stars

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    Produced:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    CRISPR:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Virus:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Recombinant:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Immunoprecipitation:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Modification:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Transfection:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    DNA Extraction:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Lysis:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Extraction:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Protease Inhibitor:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Reverse Transcription:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    SYBR Green Assay:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Polymerase Chain Reaction:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Software:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Standard Deviation:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Sequencing:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Cell Culture:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Staining:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    SDS Page:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Cryo-EM Sample Prep:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    High Performance Liquid Chromatography:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Expressing:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Purification:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Incubation:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Electrochemiluminescence:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Control:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    In Vivo:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Enzyme-linked Immunosorbent Assay:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Mutagenesis:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.

    Plasmid Preparation:

    Article Title: Rapid two-step target capture ensures efficient CRISPR-Cas9-guided genome editing.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human b2-microglobulin (2M2)-APC BioLegend Cat#316312; RRID_AB_10641281 Monoclonal ANTI-FLAG M2 antibody produced in mouse Millipore sigma Cat#F1804; RRID: AB_262044 CRISPR/Cas9 antibody Diagenode Cat#C15310258; RRID: AB_2715516 Histone H3 (D1H2) XP Rabbit mAb Cell Signaling Technologies Cat#4499; RRID: AB_10544537 Fluorescein/Oregon Green Polyclonal Antibody ThermoFisher Cat#A-889; RRID: AB_221561 Anti-Digoxigenin from sheep MilliporeSigma (Roche) Cat#11333089001; RRID: AB_514496 Bacterial and virus strains E. coli Rosetta 2 (DE3) Competent Cells EMD Millipore Cat#71397 Chemicals, peptides, and recombinant proteins GTP Sigma-Aldrich G8877-1G ATP Sigma-Aldrich A8937-1G UTP Sigma-Aldrich U6625-1G CTP Sigma-Aldrich C1506-1G Spermidine Sigma-Aldrich S2626-1G T7 RNA polymerase N/A N/A Ni-NTA Superflow Qiagen Cat#30430 TEV protease N/A N/A Mini-PROTEAN TGX Precast Protein Gel Bio-Rad Cat#4561033 Piperidine Sigma-Aldrich 411027-100ML Potassium permanganate Sigma-Aldrich 223468-25G dUTP-digoxigenin MilliporeSigma (Roche) Cat#11093088910 Streptavidin-coated gold nanospheres Cytodiagnostics Cat#ACC-60-04-15 Dynabead MyOne Carboxylic Acid ThermoFisher Cat#65012 Proteinase K NEB Cat#P8107S Dynabeads Protein A for Immunoprecipitation Invitrogen Cat#10002D Salmon Sperm DNA ThermoFisher AM9680 Dulbecco’s Modified Eagle Medium Corning Cat#10-013-CV Fetal Bovine Serum VWR Cat#97068-085 Penicillin/streptomcyin Gibco Cat#15140122 Lipofectamine 3000 Transfection Reagent Invitrogen Cat#L3000015 QuickExtract DNA Extraction Solution Biosearch Technologies Cat#QE09050 Q5 High-Fidelity 2x Master Mix NEB Cat#M0492L ddPCR Supermix for Probes (No dUTP) Bio-Rad Cat#1863024 RIPA Lysis and Extraction Buffer Fisher Scientific Cat#PI89900 Protease Inhibitor Cocktail (100X) Thermo Scientific Cat#78429 High-Capacity cDNA Reverse Transcription Kit Applied Biosystems Cat#4368814 Power SYBR Green PCR Master Mix Applied Biosystems Cat#4367659 SPRIselect Beckman Coulter Cat#B23317 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat#11836170001 Isopropyl b-d-1-thiogalactopyranoside (IPTG) Gold Biotechnology Cat#I2481C Critical commercial assays SF Cell Line 96-well Nucleofector Kit Lonza Cat#V4SC-2096 NEBNext Ultra II DNA Library Prep Kit for Illumina NEB Cat#E7645L (Continued on next page) e1 Molecular Cell 85, 1–13.e1–e9, May 1, 2025

    Article Title: The role of heparan sulfate in enhancing the chemotherapeutic response in triple-negative breast cancer.
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), recombinant heparanase (Sigma), paclitaxel (Calbiochem), OGT 2115 (Tocris), A438079 (Tocris), 5-BDBD (Tocris), and heparan sodium sulfate (Sigma).

    Article Title: Crystalline forms of a phosphoinositide 3-kinase (PI3K) inhibitor
    Article Snippet: ATP, MgCl2, DTT, EDTA, MOPS and CHAPS were purchased from SigmaAldrich (St. Louis, MO).

    Article Title: Sulfatase 2 inhibition sensitizes triple-negative breast cancer cells to paclitaxel through augmentation of extracellular ATP
    Article Snippet: The following drugs and chemicals were used: ATP (Sigma), dimethyl sulfoxide/DMSO (Sigma), paclitaxel (Calbiochem), OKN-007 (formally known as NXY-059) (Selleck Chemical), A438079 (Tocris), 5-BDBD (Tocris), heparan sodium sulfate (Sigma) and doxorubicin hydrochloride (Fisher).

    Article Title: FDA-approved disulfiram inhibits the NLRP3 inflammasome by regulating NLRP3 palmitoylation.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Flag GenScript Cat# A00187; RRID:AB_1720813 Mouse monoclonal anti-NLRP3(Cryo-2) Adipogen Cat# AG-20B-0014; RRID:AB_2490202 Rabbit monoclonal anti-NEK7 Abcam Cat# ab133514; RRID:AB_2877625 Rabbit monoclonal anti-GSDMD Abcam Cat# ab209845; RRID:AB_2783550 Mouse monoclonal IgG2b isotype control Cell signaling Cat# 53484; RRID:AB_2799435 Rat polyclonal anti-ASC Dr. Gabriel Núñez N/A Rabbit polyclonal anti-Caspase-1 Dr. Gabriel Núñez N/A THETM beta Actin Antibody [HRP] GenScript Cat# A00730; RRID:AB_914100 Bacterial and virus strains Salmonella Typhimurium Strain 14028 Dr. Denise Monack N/A Chemicals, peptides, and recombinant proteins High-capacity streptavidin agarose resin ThermoFisher Cat# 20359 Protein G beads GenScript Cat# L00209 LPS (Escherichia coli 055:B5, Ultrapure) InvivoGen Cat# tlrl-pb5lps LPS (Escherichia coli O111:B4, for in vivo expt) Sigma Cat# L2630 Poly (dA:dT) InvivoGen Cat# tlrl-patc ATP Sigma Cat# A2383 Gramicidin Sigma Cat# G5002 L-leucyl-L-leucine methyl ester (LLOMe) Sigma Cat# L7393 Nigericin EMD Millipore Cat# 481990 Imiquimod InvivoGen Cat# tlrl-imqs-1 Nano-SiO2 InvivoGen Cat# tlrl-sio-2 N-ethylmaleimide Sigma Cat# E3876 hydroxylamine Sigma Cat# 438227 HPDP-Biotin Cayman Chemical Cat# 16459 Lipofectamine LTX ThermoFisher Cat# 15338100 Lipofectamine 2000 ThermoFisher Cat# 11668019 Critical commercial assays Mouse TNF-a ELISA Kit R&D Systems Cat# DY410-05 Mouse IL-1b ELISA Kit R&D System Cat# DY401-05 QuikChange II XL Site-Directed Mutagenesis Kit Agilent Cat# 20051 Cell line Nucleofector kit V Lonza Cat# 90279050 RNeasy Mini kit Qiagen Cat# 74104 Deposited data MS data This paper PXD054126 Experimental models: Cell lines Immortalized bone marrow-derived macrophages Dr. Gabriel Núñez N/A Nlrp3 / iBMDM Dr. Gabriel Núñez N/A Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratories Cat# 000664 Recombinant DNA pHIV-EGFP Welm et al.30 pHIV-EGFP, Addgene plasmid # 21373 pHIV-NLRP3-SFP Dr. Gabriel Núñez N/A (Continued on next page) Cell Reports 43, 114609, August 27, 2024 11

    Article Title: Discovery of AZD4144, a Selective and Potent NLRP3 Inhibitor for the Treatment of Inflammatory Diseases.
    Article Snippet: Following 30− 40 min incubation, cells were triggered with 2 mM ATP (SigmaAldrich).

    Article Title: Post-symptomatic NLRP3 inhibition rescues cognitive impairment and mitigates amyloid and tau driven neurodegeneration.
    Article Snippet: Following drug incubation, bloodwas stimulatedwith 5 mMATP (Millipore) for an additional 30 min at 37 °C with 5% CO2 under continuous shaking (450 RPM), after which conditioned media was collected for analysis of secreted IL-1β in an electrochemiluminescence immunoassay (Mesoscale Discovery).

    Article Title: Structural insights into binding-site access and ligand recognition by human ABCB1.
    Article Snippet: ABCB1 is a broad-spectrum efflux pump central to cellular drug handling and multidrug resistance in humans.. However, how it is able to recognize and transport a wide range of diverse substrates remains poorly understood.. Here we present cryo-EM structures of lipid-embedded human ABCB1 in conformationally distinct apo-, substrate-bound, inhibitor-bound, and nucleotide-trapped states at 3.4–3.9 Å resolution, in the absence of stabilizing antibodies or mutations.



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    Image Search Results


    Journal: eLife

    Article Title: A VgrG2b fragment cleaved by caspase-11/4 promotes Pseudomonas aeruginosa infection through suppressing the NLRP3 inflammasome

    doi: 10.7554/eLife.99939

    Figure Lengend Snippet:

    Article Snippet: Chemical compound, drug , ATP , Merck Millipore , Cat# A6559 , .

    Techniques: Sequencing, RNA Extraction, Cell Viability Assay, Cytotoxicity Assay, Software