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    ATCC cell lines hek293t atcc cat
    Cell Lines Hek293t Atcc Cat, supplied by ATCC, used in various techniques. Bioz Stars score: 99/100, based on 12132 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/cell+lines+hek293t+atcc+cat/293T%2F17/pm42172124-270-61-64
    Average 99 stars, based on 12132 article reviews
    cell lines hek293t atcc cat - by Bioz Stars, 2026-09
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    RNA Sequencing:

    Article Title: A combined enteric neuron-gastric tumor organoid reveals metabolic vulnerabilities in gastric cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER DMH-1 Tocris Cat#4126 Essential 6 medium Gibco Cat#A1516401 CTS TM N-2 supplement Gibco Cat#A1370701 MEM Non-essential amino acids solution Gibco Cat#11140050 Recombinant human GDNF Peprotech Cat#450-10 FGF2 Stemgent Cat#03-0002 Accutase Life Technologies Cat#A11105-01 Poly-L-ornithine Merck Cat#P4957 Geltrex LDEV-Free, hESC-Qualified, reduced growth factor basement membrane matrix Gibco Cat#A1413302 Zeocin TM Invitrogen Cat#R25001 Puromycin InvivoGen Cat#ant-pr-1 Ampicillin Gold Biotechnology Cat#A30125 Opti-MEMTM Gibco Cat#31985070 PEI transfection reagent MedChemExpress Cat#HY-K2014 Dimethyl sulfoxide Sigma-Aldrich Cat#D2650 5-Fluorouracil Sigma-Aldrich Cat#F6627 IACS-010759 Cayman Cat#25867 IM-156 Cayman Cat#34763 ND630 Cayman Cat#23961 ND646 Cayman Cat#34764 Ro 48-8071 fumarate MedChemExpress Cat#HY-18630A MG-132 Sigma-Aldrich Cat#474790 Rotenone Cayman Cat#13995 TVB-2640 Cayman Cat#35703 BSA Control for BSA-Fatty Acid Complexes Cayman Cat#29556 BSA-Palmitate Saturated Fatty Acid Complex Cayman Cat#29558 BSA-Oleate Monounsaturated Fatty Acid Complex Cayman Cat#29557 Acetylcholine Merck Cat#A2661 Acetate Millipore Cat#567422 Serotonin hydrochloride MedChemExpress Cat#HY-B1473 GABA MedChemExpress Cat#HY-N0067 Dopamine hydrochloride MedChemExpress Cat#HY-B0451A VIP MedChemExpress Cat#HY-P1023 Neuropeptide Y MedChemExpress Cat#HY-P1601 Substance P MedChemExpress Cat#HY-P0201 TNF-α MedChemExpress Cat#HY-P1860 QuickExtractTM DNA Extraction Solution Biosearch Technologies Cat#QE09050 D-Luciferin, Potassium Salt Gold Biotechnology Cat#LUCK-1G Tween 80 Sigma-Aldrich Cat#P1754 PEG 400 Polysciences Cat#25322-68-3 Pierce ECL Western Blotting Substrate Thermo Scientific Cat#32106 Critical commercial assays MiniBEST Plasmid Purification Kit TaKaRa Cat#9760 Plasmid Midi Kit QIAGEN Cat#12145 DNeasy Blood & Tissue Kit QIAGEN Cat#69506 MiniBEST Universal RNA Extraction Kit TaKaRa Cat#9767 Agencourt AMPure XP beads Beckman Coulter Cat#A63881 Cell titer-Glo® Luminescent Cell Viability Assay Promega Cat#G7572 Kapa HiFi HotStart ReadyMix Kapa Biosystems Cat#KK2602 (Continued on next page) Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER KAPA mRNA HyperPrep Kit Kapa Biosystems Cat#KK8580 SYBR® Premix Ex TaqTM TaKaRa Cat#RR420 Free Fatty Acid Quantification Assay Kit Abcam Cat#ab65341 Triglyceride Quantification Assay Kit Abcam Cat# ab65336 Deposited data RNA-seq data This study GEO:GSE303453 Data S1 This study Mendeley: https://doi.org/10.17632/8xh8sx232r.1 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Gastric cancer cell lines Suet Yi Leung Laboratory N/A Patient-derived GC organoid lines Yan et al. 15 and Tong et al, 16 N/A H9 hESC Kathryn Song Eng Cheah Laboratory N/A Experimental models: Organisms/strains BALB/cAnN-nu mice Charles River Laborattory N/A NOD/SCID mice Charles River Laborattory N/A Oligonucleotides See Methods S1 for sgRNA sequences This study N/A See Methods S1 for qRT-PCR primers This study N/A Recombinant DNA See Methods S1 for plasmid constructs This study N/A Software and algorithms RStudio v4.3.2 RStudio https://www.r-project.org/ MAGeCK v0.5.9 Li et al. 18 https://sourceforge.net/p/mageck/wiki/Home/ BAGEL Hart et al. 79 https://github.com/hart-lab/bagel CRISPRcleanR Iorio et al. 80 https://github.com/francescojm/CRISPRcleanR CoRe Vinceti et al. 81 https://github.com/DepMap-Analytics/CoRe/ tree/master Chronos Dempster et al. 22 https://github.com/broadinstitute/chronos JACKS Allen et al. 82 https://github.com/felicityallen/JACKS DrugZ Colic et al 83 https://github.com/hart-lab/drugz sva v3.34.0 Leek et al. 84 https://bioconductor.org/packages/release/bioc/ html/sva.html ShinyGO 0.76 Ge et al. 85 http://bioinformatics.sdstate.edu/go76/ GSEA Broad Institute https://www.gsea-msigdb.org/gsea/msigdb/ index.jsp Rsubread Liao et al. 86 https://bioconductor.org/packages/release/bioc/ html/Rsubread.html edgeR Robinson et al. 87 https://bioconductor.org/packages/release/bioc/ html/edgeR.html limma Ritchie et al. 88 https://bioconductor.org/packages/release/bioc/ html/limma.html STAR v2.7.11b Dobin et al. 89 https://github.com/alexdobin/STAR/tree/master STAR-Fusion v1.7.0 Hass et al. 90 https://github.com/STAR-Fusion/STAR- Fusion/wiki CTAT-splicing v0.0.3 National Cancer Institute https://github.com/TrinityCTAT/ CTAT-SPLICING/wiki rMATS v4.1.1 Shen et al. 91 https://github.com/Xinglab/rmats-turbo Image J Schneider et al. 92 https://imagej.net/ij/ FlowJo v10.8.1 BD Biosciences https://www.flowjo.com/ SPSS v25 IBM https://www.ibm.com/products/spss GraphPad Prism 9 GraphPad https://www.graphpad.com/ e3 Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 ..

    Article Title: Keratinocyte differentiation transcription factor ZNF750 coordinates the development of epidermal immunocytes.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies APC anti-mouse CD45 BioLegend Cat#103111; RRID:AB_312976 APC anti-mouse F4/80 BioLegend Cat#23116; RRID:AB_893481 Rabbit anti-COL17A GeneTex Cat#GTX64247 Anti Rabbit Alexa Fluor 594 Jackson ImmunoResearch Cat# 711-585-152; RRID:AB_2340621 PerCP anti-mouse CD45 BioLegend Cat#103130; RRID:AB_893339 PE/Cyanine7 anti-mouse/human CD11b BioLegend Cat#101216; RRID:AB_312799 APC/Cyanine7 anti-mouse CX3CR1 BioLegend Cat#149048 PE anti-mouse F4/80 BioLegend Cat#123109; RRID:AB_893498 APC anti-mouse CD11c eBiosciences Cat#17-0114-81; RRID:AB_469345 PE anti-mouse CD3e BioLegend Cat#100206; RRID:AB_312663 APC anti-mouse I-A/I-E BioLegend Cat#107613; RRID:AB_313328 APC anti-Annexin V BioLegend Cat#640920 FITC anti-mouse Ki67 BioLegend Cat#652410 Bacterial and virus strains E. Coli, strain DH5α Thermo Fisher Scientific Cat#18265017 Chemicals, peptides, and recombinant proteins DMEM Sartorius Cat#01-052-1A KGM Gold Lonza Cat#00192060 DPBS, (− ) calcium, (− ) magnisum Sartorius Cat#02-023-1A Pen/Strep/Nystatin Sartorius Cat#03-032-1B fetal bovine serum) FBS( Thermo Fisher Scientific Cat#10270106 Trypsin-EDTA Sigma Cat#T4049 Dispase II Gibco Cat #17105041 Tissue Freezing Medium Leica Cat#14020108926 Triton X-100 Sigma Cat#T9284 Goat serum Sigma Cat#G6767 Bovine serum albumin (BSA) Sigma Cat#A8022 Gelatin Sigma Cat#G7041 DAPI Sigma Cat#32670 Collagenase type I Worthington Biochemical Cat#LS004196 EDTA Sartorius Cat#01-862-1B HEPES Sartorius Cat#03-025-1B TWEEN 20 Sigma Cat#P9416 Paraformaldehyde (PFA) Thermo Fisher Scientific Cat#043368.9M Critical commercial assays pGEM-T Easy Vector Systems Promega Cat#A1360 TriRNA Pure Kit Geneaid Biotech Cat#TRPD200 AzuraQuant II cDNA Synthesis Kit Azura Genomics Cat#AZ-2504 LightCycler 480 SYBR Green I Master Mix Roche Cat#04887352001 PolyJet In Vitro DNA Transfection Reagent SignaGen Cat#SL100688 Phusion High-Fidelity DNA polymerase New England Biolabs Cat#M0530S Neon NxT Electroporation System Thermo Fisher Scientific Cat#N1096 Dual-Luciferase Reporter Assay System Promega Cat#E1910 (Continued on next page) 10 Cell Reports 44, 116648, December 23, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq data Schwartz et al. 18 GEO: GSE235032 RNA-seq data Swindell et al. 32 GEO: GSE67785 RNA-seq data Deng et al. 33 GEO: GSE186063 RNA-seq data Tsoi et al. 31 GEO: GSE121212 ChIP-seq data (ZNF750) Boxer et al. 16 GEO: GSE57702 RNA-seq; CUT&RUN data (H3K27ac, H3K4me3) Oss-Ronen et al. 36 GEO: GSE261573 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Primary normal human epidermal keratinocytes Lonza Cat#00192907 Experimental models: Organisms/strains Mouse: Znf750 flox/flox Idan Cohen Lab 18 N/A Mouse: Tg(Krt14-Cre)1Amc/J Jackson Labs Strain#004782 Oligonucleotides See Table S3 N/A N/A Recombinant DNA pHAGE-ZNF750 This Paper N/A pHDM-Hgpm2 Addgene Cat#164441 pRC-CMV-Rev1b Addgene Cat#164443 pHDM-Tat1b Addgene Cat#164442 pHDM-VSV-G Addgene Cat#164440 pGL4.23 Promega Cat# E8411 pGL4.23-eIL34 This Paper N/A pGL4.23-eIL34_Δ ZNF750 This Paper N/A Software and algorithms NeatSeq-Flow platform Sklarz et al. 37 https://neatseq-flow.readthedocs.io/en/latest/ Trim Galore v0.4.5 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ Cutadapt v1.15 DOI:https://doi.org/ 10.14806/ej.17.1.200 https://cutadapt.readthedocs.io/en/v1.15/index.html STAR v2.5.2a Dobin et al. 38 N/A RSEM v1.2.28 Li et al. 39 https://deweylab.github.io/RSEM/ FASTQC v0.11.8 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/fastqc/ MultiQC v1.0.dev0 Ewels et al. 40 https://seqera.io/multiqc/ DESeq2 Love et al. 41 https://bioconductor.org/packages/devel/ bioc/html/DESeq2.html Heatmapper Babicki et al. 42 http://www.heatmapper.ca./ DAVID Sherman et al. 43 https://davidbioinformatics.nih.gov/home.jsp Cellsens standard Olympus https://evidentscientific.com/en/products/ software/cellsens Kaluza Analysis 2.1 Beckman Coulter https://www.beckman.co.il/flow-cytometry/ software/kaluza ChIP-Atlas platform v3.0 Zou et al. 44 https://chip-atlas.org/ Integrative Genomics Viewer (IGV) Broad Institute http://software.broadinstitute.org/software/igv/ GraphPad Prism 8.0.2 GraphPad https://www.graphpad.com/ BioRender https://app.biorender.com/ Cell Reports 44, 116648, December 23, 2025 11 ..

    Quantitative RT-PCR:

    Article Title: A combined enteric neuron-gastric tumor organoid reveals metabolic vulnerabilities in gastric cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER DMH-1 Tocris Cat#4126 Essential 6 medium Gibco Cat#A1516401 CTS TM N-2 supplement Gibco Cat#A1370701 MEM Non-essential amino acids solution Gibco Cat#11140050 Recombinant human GDNF Peprotech Cat#450-10 FGF2 Stemgent Cat#03-0002 Accutase Life Technologies Cat#A11105-01 Poly-L-ornithine Merck Cat#P4957 Geltrex LDEV-Free, hESC-Qualified, reduced growth factor basement membrane matrix Gibco Cat#A1413302 Zeocin TM Invitrogen Cat#R25001 Puromycin InvivoGen Cat#ant-pr-1 Ampicillin Gold Biotechnology Cat#A30125 Opti-MEMTM Gibco Cat#31985070 PEI transfection reagent MedChemExpress Cat#HY-K2014 Dimethyl sulfoxide Sigma-Aldrich Cat#D2650 5-Fluorouracil Sigma-Aldrich Cat#F6627 IACS-010759 Cayman Cat#25867 IM-156 Cayman Cat#34763 ND630 Cayman Cat#23961 ND646 Cayman Cat#34764 Ro 48-8071 fumarate MedChemExpress Cat#HY-18630A MG-132 Sigma-Aldrich Cat#474790 Rotenone Cayman Cat#13995 TVB-2640 Cayman Cat#35703 BSA Control for BSA-Fatty Acid Complexes Cayman Cat#29556 BSA-Palmitate Saturated Fatty Acid Complex Cayman Cat#29558 BSA-Oleate Monounsaturated Fatty Acid Complex Cayman Cat#29557 Acetylcholine Merck Cat#A2661 Acetate Millipore Cat#567422 Serotonin hydrochloride MedChemExpress Cat#HY-B1473 GABA MedChemExpress Cat#HY-N0067 Dopamine hydrochloride MedChemExpress Cat#HY-B0451A VIP MedChemExpress Cat#HY-P1023 Neuropeptide Y MedChemExpress Cat#HY-P1601 Substance P MedChemExpress Cat#HY-P0201 TNF-α MedChemExpress Cat#HY-P1860 QuickExtractTM DNA Extraction Solution Biosearch Technologies Cat#QE09050 D-Luciferin, Potassium Salt Gold Biotechnology Cat#LUCK-1G Tween 80 Sigma-Aldrich Cat#P1754 PEG 400 Polysciences Cat#25322-68-3 Pierce ECL Western Blotting Substrate Thermo Scientific Cat#32106 Critical commercial assays MiniBEST Plasmid Purification Kit TaKaRa Cat#9760 Plasmid Midi Kit QIAGEN Cat#12145 DNeasy Blood & Tissue Kit QIAGEN Cat#69506 MiniBEST Universal RNA Extraction Kit TaKaRa Cat#9767 Agencourt AMPure XP beads Beckman Coulter Cat#A63881 Cell titer-Glo® Luminescent Cell Viability Assay Promega Cat#G7572 Kapa HiFi HotStart ReadyMix Kapa Biosystems Cat#KK2602 (Continued on next page) Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER KAPA mRNA HyperPrep Kit Kapa Biosystems Cat#KK8580 SYBR® Premix Ex TaqTM TaKaRa Cat#RR420 Free Fatty Acid Quantification Assay Kit Abcam Cat#ab65341 Triglyceride Quantification Assay Kit Abcam Cat# ab65336 Deposited data RNA-seq data This study GEO:GSE303453 Data S1 This study Mendeley: https://doi.org/10.17632/8xh8sx232r.1 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Gastric cancer cell lines Suet Yi Leung Laboratory N/A Patient-derived GC organoid lines Yan et al. 15 and Tong et al, 16 N/A H9 hESC Kathryn Song Eng Cheah Laboratory N/A Experimental models: Organisms/strains BALB/cAnN-nu mice Charles River Laborattory N/A NOD/SCID mice Charles River Laborattory N/A Oligonucleotides See Methods S1 for sgRNA sequences This study N/A See Methods S1 for qRT-PCR primers This study N/A Recombinant DNA See Methods S1 for plasmid constructs This study N/A Software and algorithms RStudio v4.3.2 RStudio https://www.r-project.org/ MAGeCK v0.5.9 Li et al. 18 https://sourceforge.net/p/mageck/wiki/Home/ BAGEL Hart et al. 79 https://github.com/hart-lab/bagel CRISPRcleanR Iorio et al. 80 https://github.com/francescojm/CRISPRcleanR CoRe Vinceti et al. 81 https://github.com/DepMap-Analytics/CoRe/ tree/master Chronos Dempster et al. 22 https://github.com/broadinstitute/chronos JACKS Allen et al. 82 https://github.com/felicityallen/JACKS DrugZ Colic et al 83 https://github.com/hart-lab/drugz sva v3.34.0 Leek et al. 84 https://bioconductor.org/packages/release/bioc/ html/sva.html ShinyGO 0.76 Ge et al. 85 http://bioinformatics.sdstate.edu/go76/ GSEA Broad Institute https://www.gsea-msigdb.org/gsea/msigdb/ index.jsp Rsubread Liao et al. 86 https://bioconductor.org/packages/release/bioc/ html/Rsubread.html edgeR Robinson et al. 87 https://bioconductor.org/packages/release/bioc/ html/edgeR.html limma Ritchie et al. 88 https://bioconductor.org/packages/release/bioc/ html/limma.html STAR v2.7.11b Dobin et al. 89 https://github.com/alexdobin/STAR/tree/master STAR-Fusion v1.7.0 Hass et al. 90 https://github.com/STAR-Fusion/STAR- Fusion/wiki CTAT-splicing v0.0.3 National Cancer Institute https://github.com/TrinityCTAT/ CTAT-SPLICING/wiki rMATS v4.1.1 Shen et al. 91 https://github.com/Xinglab/rmats-turbo Image J Schneider et al. 92 https://imagej.net/ij/ FlowJo v10.8.1 BD Biosciences https://www.flowjo.com/ SPSS v25 IBM https://www.ibm.com/products/spss GraphPad Prism 9 GraphPad https://www.graphpad.com/ e3 Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 ..

    Recombinant:

    Article Title: A combined enteric neuron-gastric tumor organoid reveals metabolic vulnerabilities in gastric cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER DMH-1 Tocris Cat#4126 Essential 6 medium Gibco Cat#A1516401 CTS TM N-2 supplement Gibco Cat#A1370701 MEM Non-essential amino acids solution Gibco Cat#11140050 Recombinant human GDNF Peprotech Cat#450-10 FGF2 Stemgent Cat#03-0002 Accutase Life Technologies Cat#A11105-01 Poly-L-ornithine Merck Cat#P4957 Geltrex LDEV-Free, hESC-Qualified, reduced growth factor basement membrane matrix Gibco Cat#A1413302 Zeocin TM Invitrogen Cat#R25001 Puromycin InvivoGen Cat#ant-pr-1 Ampicillin Gold Biotechnology Cat#A30125 Opti-MEMTM Gibco Cat#31985070 PEI transfection reagent MedChemExpress Cat#HY-K2014 Dimethyl sulfoxide Sigma-Aldrich Cat#D2650 5-Fluorouracil Sigma-Aldrich Cat#F6627 IACS-010759 Cayman Cat#25867 IM-156 Cayman Cat#34763 ND630 Cayman Cat#23961 ND646 Cayman Cat#34764 Ro 48-8071 fumarate MedChemExpress Cat#HY-18630A MG-132 Sigma-Aldrich Cat#474790 Rotenone Cayman Cat#13995 TVB-2640 Cayman Cat#35703 BSA Control for BSA-Fatty Acid Complexes Cayman Cat#29556 BSA-Palmitate Saturated Fatty Acid Complex Cayman Cat#29558 BSA-Oleate Monounsaturated Fatty Acid Complex Cayman Cat#29557 Acetylcholine Merck Cat#A2661 Acetate Millipore Cat#567422 Serotonin hydrochloride MedChemExpress Cat#HY-B1473 GABA MedChemExpress Cat#HY-N0067 Dopamine hydrochloride MedChemExpress Cat#HY-B0451A VIP MedChemExpress Cat#HY-P1023 Neuropeptide Y MedChemExpress Cat#HY-P1601 Substance P MedChemExpress Cat#HY-P0201 TNF-α MedChemExpress Cat#HY-P1860 QuickExtractTM DNA Extraction Solution Biosearch Technologies Cat#QE09050 D-Luciferin, Potassium Salt Gold Biotechnology Cat#LUCK-1G Tween 80 Sigma-Aldrich Cat#P1754 PEG 400 Polysciences Cat#25322-68-3 Pierce ECL Western Blotting Substrate Thermo Scientific Cat#32106 Critical commercial assays MiniBEST Plasmid Purification Kit TaKaRa Cat#9760 Plasmid Midi Kit QIAGEN Cat#12145 DNeasy Blood & Tissue Kit QIAGEN Cat#69506 MiniBEST Universal RNA Extraction Kit TaKaRa Cat#9767 Agencourt AMPure XP beads Beckman Coulter Cat#A63881 Cell titer-Glo® Luminescent Cell Viability Assay Promega Cat#G7572 Kapa HiFi HotStart ReadyMix Kapa Biosystems Cat#KK2602 (Continued on next page) Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER KAPA mRNA HyperPrep Kit Kapa Biosystems Cat#KK8580 SYBR® Premix Ex TaqTM TaKaRa Cat#RR420 Free Fatty Acid Quantification Assay Kit Abcam Cat#ab65341 Triglyceride Quantification Assay Kit Abcam Cat# ab65336 Deposited data RNA-seq data This study GEO:GSE303453 Data S1 This study Mendeley: https://doi.org/10.17632/8xh8sx232r.1 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Gastric cancer cell lines Suet Yi Leung Laboratory N/A Patient-derived GC organoid lines Yan et al. 15 and Tong et al, 16 N/A H9 hESC Kathryn Song Eng Cheah Laboratory N/A Experimental models: Organisms/strains BALB/cAnN-nu mice Charles River Laborattory N/A NOD/SCID mice Charles River Laborattory N/A Oligonucleotides See Methods S1 for sgRNA sequences This study N/A See Methods S1 for qRT-PCR primers This study N/A Recombinant DNA See Methods S1 for plasmid constructs This study N/A Software and algorithms RStudio v4.3.2 RStudio https://www.r-project.org/ MAGeCK v0.5.9 Li et al. 18 https://sourceforge.net/p/mageck/wiki/Home/ BAGEL Hart et al. 79 https://github.com/hart-lab/bagel CRISPRcleanR Iorio et al. 80 https://github.com/francescojm/CRISPRcleanR CoRe Vinceti et al. 81 https://github.com/DepMap-Analytics/CoRe/ tree/master Chronos Dempster et al. 22 https://github.com/broadinstitute/chronos JACKS Allen et al. 82 https://github.com/felicityallen/JACKS DrugZ Colic et al 83 https://github.com/hart-lab/drugz sva v3.34.0 Leek et al. 84 https://bioconductor.org/packages/release/bioc/ html/sva.html ShinyGO 0.76 Ge et al. 85 http://bioinformatics.sdstate.edu/go76/ GSEA Broad Institute https://www.gsea-msigdb.org/gsea/msigdb/ index.jsp Rsubread Liao et al. 86 https://bioconductor.org/packages/release/bioc/ html/Rsubread.html edgeR Robinson et al. 87 https://bioconductor.org/packages/release/bioc/ html/edgeR.html limma Ritchie et al. 88 https://bioconductor.org/packages/release/bioc/ html/limma.html STAR v2.7.11b Dobin et al. 89 https://github.com/alexdobin/STAR/tree/master STAR-Fusion v1.7.0 Hass et al. 90 https://github.com/STAR-Fusion/STAR- Fusion/wiki CTAT-splicing v0.0.3 National Cancer Institute https://github.com/TrinityCTAT/ CTAT-SPLICING/wiki rMATS v4.1.1 Shen et al. 91 https://github.com/Xinglab/rmats-turbo Image J Schneider et al. 92 https://imagej.net/ij/ FlowJo v10.8.1 BD Biosciences https://www.flowjo.com/ SPSS v25 IBM https://www.ibm.com/products/spss GraphPad Prism 9 GraphPad https://www.graphpad.com/ e3 Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 ..

    Article Title: cGAS attenuates hypoxia-inducible factor signaling via chaperone-mediated autophagic degradation of HIFα.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Myc Santa Cruz Cat #sc-40 Rabbit monoclonal anti-Myc Abclonal Cat#AE070 Mouse monoclonal anti-HA Covance Cat #901515 Mouse monoclonal anti-Flag Sigma-Aldrich Cat #F1804 Mouse monoclonal anti-β-actin Abclonal Cat #AC206 Rabbit monoclonal anti-cGAS Cell Signaling Technology Cat #31659 Mouse monoclonal anti-cGAS Santa Cruz Cat #sc-515777 Rabbit monoclonal anti- HIF1α Cell Signaling Technology Cat#36169 Fluorescein conjugated Anti-PI (4,5) P2 IgM Echelon Biosciences Cat#Z-G045 Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Mouse monoclonal anti-LAMP2A Santa Cruz Cat# sc-18822 Mouse monoclonal anti-HSC70 Santa Cruz Cat# sc-7298 Rabbit monoclonal anti-ATG5 Cell Signaling Technology Cat# 9980S Rabbit monoclonal anti-BECKLIN-1 Cell Signaling Technology Cat# 3495S normal rabbit IgG Cell Signaling Technology Cat#2729 normal mouse IgG Cell Signaling Technology Cat#68860 Rabbit monoclonal anti-Phospho-IRF3 (Ser396) Cell Signaling Technology Cat# 29047S Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Rabbit monoclonal anti-HIF1β Cell Signaling Technology Cat#5537 Alexa Fluor 594 goat anti-mouse IgG ThermoFisher Scientific Cat #A11005 Alexa Fluor 647 goat anti-rabbit IgG ThermoFisher Scientific Cat #A21245 Na+/K + -ATPase Rabbit pAb Abclonal Cat#A12405 Mouse monoclonal anti-p65 Cell Signaling Technology Cat#6956 Rabbit monoclonal anti-Flag Abclonal Cat # AE092 Chemicals, peptides, and recombinant proteins DMSO Sigma-Aldrich Cat#D2650 β-Mercaptoethanol GEN-VIEW Cat#GM195 NH4CL Sigma-Aldrich Cat#326372 MG132 Sigma-Aldrich Cat #474790 Bafilomycin A1 MedChemExpress Cat#HY-100558 Chloroquine MedChemExpress HY-17589A 3MA Sigma-Aldrich Cat# 189490 Cycloheximide (CHX) MedChemExpress Cat#HY-12320 PX478 Selleck Cat#S7612 CoCl2 Sigma-Aldrich Cat#C8661 DAPI Thermo Fisher Cat#62248 RNAiso plus Takara Cat# 9109 Rhodamine Phalloidin ABclonal Cat#RM02835 Lipofectamine 2000 Reagent Thermo Fisher Cat# 1668019 Transfection Reagent VigoFect Vigorous Biotech Cat#T001 Protease Inhibitor Cocktail Bimake Cat#B14001 HT-DNA Sigma-Aldrich Cat#D6898 Recombinant Human GM-CSF PeproTech Cat#315-03 Recombinant Human M-CSF PeproTech Cat#315-02 (Continued on next page) Cell Reports 45, 117377, June 23, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER Benzonase Nuclease Servicebio Cat#G3461 Critical commercial assays Revert Aid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 SYBR Green qRCR Mix (High ROX) Monad Biotech Cat# MQ10301S Anti-Flag Ab–conjugated agarose beads YEASEN Cat#A2220 Anti-Myc Ab–conjugated agarose beads YEASEN Cat#A7470 Protein G Sepharose GE HealthCare Company Cat#17-0618-01 Mouse Epo ELISA kit R&D Systems Cat#MEP00B Experimental models: Cell lines HEK293T ATCC Cat #CRL-11268 H1299 ATCC Cat #CRL-5803 THP-1 ATCC Cat #TIB-202 cGas− /− BMDCs This paper N/A cGas− /− BMDMs This paper N/A cGas− /− MLFs This paper N/A CGAS/LAMP2A-knockdown-THP-1 This paper N/A CGAS/HSC70-knockdown-THP-1 This paper N/A LAMP2A-knockdown-THP-1 This paper N/A HSC70-knockdown-THP-1 This paper N/A CGAS-knockdown-THP-1 This paper N/A pHAGE-Myc-cGAS-THP-1 This paper N/A HIF1β-knockout H1299 This paper N/A cGAS-knockout H1299 This paper N/A VHL-knockout H1299 This paper N/A cGAS/p65-knockdown-H1299 This paper N/A p65-knockdown-H1299 This paper N/A Bacterial strains E.coli BL21 Transgen Biotech Cat# CD601 Oligonucleotides The cGAS-gRNA targeting sequence: 5′-CGATGGATCCCACCGAGTCT-3′ This paper N/A The HSC70- gRNA targeting sequence: 5′- TTCAGTGTCCGTAAAGGCGA-3’ This paper N/A The LAMP2A- gRNA targeting sequence: 5′- GCACATATAAGAACTTCCCA-3’ This paper N/A The zebrafish-cgas-gRNA targeting sequence: 5′-GGCTCTGTTCATAAAAAAAC-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-1: 5′AGGGCCTCTACAAGGTGTTCTGG-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-2: 5′-GTGTGCTATTAGGAACTGATGG-3′ This paper N/A The HIF-1α-siRNA targeting sequence: 5′-CCGUAUGGAAGACAUUAAATT-3′ This paper N/A Primers for RT-PCR and identification, see Table S2 This paper N/A The p65- gRNA targeting sequence: 5′- GGGGGTGAGGCCGGTGAGGA-3’ This paper N/A Recombinant DNA pCMV-Myc Clonteck Cat #K6003-1 pCMV-HA Clonteck Cat #631604 pCMV-Flag This paper N/A (Continued on next page) 18 Cell Reports 45, 117377, June 23, 2026 ..

    Article Title: Keratinocyte differentiation transcription factor ZNF750 coordinates the development of epidermal immunocytes.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies APC anti-mouse CD45 BioLegend Cat#103111; RRID:AB_312976 APC anti-mouse F4/80 BioLegend Cat#23116; RRID:AB_893481 Rabbit anti-COL17A GeneTex Cat#GTX64247 Anti Rabbit Alexa Fluor 594 Jackson ImmunoResearch Cat# 711-585-152; RRID:AB_2340621 PerCP anti-mouse CD45 BioLegend Cat#103130; RRID:AB_893339 PE/Cyanine7 anti-mouse/human CD11b BioLegend Cat#101216; RRID:AB_312799 APC/Cyanine7 anti-mouse CX3CR1 BioLegend Cat#149048 PE anti-mouse F4/80 BioLegend Cat#123109; RRID:AB_893498 APC anti-mouse CD11c eBiosciences Cat#17-0114-81; RRID:AB_469345 PE anti-mouse CD3e BioLegend Cat#100206; RRID:AB_312663 APC anti-mouse I-A/I-E BioLegend Cat#107613; RRID:AB_313328 APC anti-Annexin V BioLegend Cat#640920 FITC anti-mouse Ki67 BioLegend Cat#652410 Bacterial and virus strains E. Coli, strain DH5α Thermo Fisher Scientific Cat#18265017 Chemicals, peptides, and recombinant proteins DMEM Sartorius Cat#01-052-1A KGM Gold Lonza Cat#00192060 DPBS, (− ) calcium, (− ) magnisum Sartorius Cat#02-023-1A Pen/Strep/Nystatin Sartorius Cat#03-032-1B fetal bovine serum) FBS( Thermo Fisher Scientific Cat#10270106 Trypsin-EDTA Sigma Cat#T4049 Dispase II Gibco Cat #17105041 Tissue Freezing Medium Leica Cat#14020108926 Triton X-100 Sigma Cat#T9284 Goat serum Sigma Cat#G6767 Bovine serum albumin (BSA) Sigma Cat#A8022 Gelatin Sigma Cat#G7041 DAPI Sigma Cat#32670 Collagenase type I Worthington Biochemical Cat#LS004196 EDTA Sartorius Cat#01-862-1B HEPES Sartorius Cat#03-025-1B TWEEN 20 Sigma Cat#P9416 Paraformaldehyde (PFA) Thermo Fisher Scientific Cat#043368.9M Critical commercial assays pGEM-T Easy Vector Systems Promega Cat#A1360 TriRNA Pure Kit Geneaid Biotech Cat#TRPD200 AzuraQuant II cDNA Synthesis Kit Azura Genomics Cat#AZ-2504 LightCycler 480 SYBR Green I Master Mix Roche Cat#04887352001 PolyJet In Vitro DNA Transfection Reagent SignaGen Cat#SL100688 Phusion High-Fidelity DNA polymerase New England Biolabs Cat#M0530S Neon NxT Electroporation System Thermo Fisher Scientific Cat#N1096 Dual-Luciferase Reporter Assay System Promega Cat#E1910 (Continued on next page) 10 Cell Reports 44, 116648, December 23, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq data Schwartz et al. 18 GEO: GSE235032 RNA-seq data Swindell et al. 32 GEO: GSE67785 RNA-seq data Deng et al. 33 GEO: GSE186063 RNA-seq data Tsoi et al. 31 GEO: GSE121212 ChIP-seq data (ZNF750) Boxer et al. 16 GEO: GSE57702 RNA-seq; CUT&RUN data (H3K27ac, H3K4me3) Oss-Ronen et al. 36 GEO: GSE261573 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Primary normal human epidermal keratinocytes Lonza Cat#00192907 Experimental models: Organisms/strains Mouse: Znf750 flox/flox Idan Cohen Lab 18 N/A Mouse: Tg(Krt14-Cre)1Amc/J Jackson Labs Strain#004782 Oligonucleotides See Table S3 N/A N/A Recombinant DNA pHAGE-ZNF750 This Paper N/A pHDM-Hgpm2 Addgene Cat#164441 pRC-CMV-Rev1b Addgene Cat#164443 pHDM-Tat1b Addgene Cat#164442 pHDM-VSV-G Addgene Cat#164440 pGL4.23 Promega Cat# E8411 pGL4.23-eIL34 This Paper N/A pGL4.23-eIL34_Δ ZNF750 This Paper N/A Software and algorithms NeatSeq-Flow platform Sklarz et al. 37 https://neatseq-flow.readthedocs.io/en/latest/ Trim Galore v0.4.5 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ Cutadapt v1.15 DOI:https://doi.org/ 10.14806/ej.17.1.200 https://cutadapt.readthedocs.io/en/v1.15/index.html STAR v2.5.2a Dobin et al. 38 N/A RSEM v1.2.28 Li et al. 39 https://deweylab.github.io/RSEM/ FASTQC v0.11.8 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/fastqc/ MultiQC v1.0.dev0 Ewels et al. 40 https://seqera.io/multiqc/ DESeq2 Love et al. 41 https://bioconductor.org/packages/devel/ bioc/html/DESeq2.html Heatmapper Babicki et al. 42 http://www.heatmapper.ca./ DAVID Sherman et al. 43 https://davidbioinformatics.nih.gov/home.jsp Cellsens standard Olympus https://evidentscientific.com/en/products/ software/cellsens Kaluza Analysis 2.1 Beckman Coulter https://www.beckman.co.il/flow-cytometry/ software/kaluza ChIP-Atlas platform v3.0 Zou et al. 44 https://chip-atlas.org/ Integrative Genomics Viewer (IGV) Broad Institute http://software.broadinstitute.org/software/igv/ GraphPad Prism 8.0.2 GraphPad https://www.graphpad.com/ BioRender https://app.biorender.com/ Cell Reports 44, 116648, December 23, 2025 11 ..

    Article Title: CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Actin Cell Signaling Cat#4970 Mouse anti-Actin Cell Signaling Cat#3700 Rabbit anti-GFP Chromotek Cat#pabg1 Mouse anti-GFP Santa Cruz Biotech Cat#sc-9996 Mouse anti-GAPDH Santa Cruz Biotech Cat#sc-32233 Rabbit anti-tau oligomer (T22) Rakez Kayed, The University of Texas Medical Branch at Galveston Gift Rabbit anti-tau oligomer (M204) David Eisenberg, University of California, Los Angeles N/A Mouse anti-tau oligomer (TOC1) Nicholas Kanaan, Michigan State University N/A Rabbit anti-tau oligomer (T22-I) EMD Millipore Cat#ABN454-I Rabbit anti-tau oligomer (TTC18) Li Gan, Weill Cornell Medical School Gift Mouse anti-tau (Tau13) Santa Cruz Biotech Cat#21796 Mouse anti-tau (HT7) Thermo Fisher Scientific Cat#MN1000 Rabbit anti-tau DAKO Cat#05-803 Biotin anti-tau, 6-18 antibody (Tau12) Biolegend Cat#806506 Pierce Streptavidin Poly-HRP Thermo Fisher Scientific Cat#21140 Mouse anti-NeuN Biolegend Cat#SIG-39860 Mouse anti-Rbx2 (RNF7) Santa Cruz Biotech Cat#166554 Rabbit anti-ELOB ProteinTech Cat#A0024 Rabbit anti-Histone H3 Cell Signaling Cat#4499 Rabbit anti-PSD95 Cell Signaling Cat#3450 Goat anti-rabbit 680 LICOR Cat#926-32210 Goat anti-mouse 800 LICOR Cat#926-68071 Anti-mouse IgG, HRP-linked Cell Signaling Cat#7076 Anti-rabbit IgG, HRP-linked Cell Signaling Cat#7074 Rabbit anti-FLAG Cell Signaling Cat#14793 Mouse anti-HA Cell Signaling Cat#2367 Mouse anti-PSMA2 Thermo Fisher Scientific Cat#MA5-26149 Mouse anti PSMA1-3,5-7 Abcam Cat#MCP231 Rabbit anti PSMD11 Cell Signaling Cat#14303 Rabbit anti-CUL5 Atlas Antibodies Cat#HPA002185 Bacterial or virus strains DH5alpha Thermo Fisher Scientific Cat#18265017 BL21(DE3) Thermo Fisher Scientific Cat#EC0114 MegaX DH10B T1 R Thermo Fisher Scientific Cat#C640003 Chemicals, peptides, and recombinant proteins StemFlex Media Thermo Fisher Scientific Cat#A3349401 Y-27632 Stem Cell Technologies Cat#72308 Matrigel hESC-Qualified Matrix Corning Cat#354277 Doxycycline hyclate (Dox) Sigma-Aldrich Cat#D9891 Brain-derived neurotrophic factor (BDNF) PeproTech Cat#450-02 Neurotrophin-3 (NT-3) PeproTech Cat#450-03 (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e1 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zymo Gigaprep kit Zymo Cat#D4204 Poly-D-Lysine Culture Dishes Corning Cat#354550 Universal Mycoplasma Detection Kit ATCC Cat#30-1012K Deposited data Raw and processed data (bulk CRISPR-screen data) This paper N/A Experimental models: Cell lines HEK293T ATCC CatCRL-11268 Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration Tian et al. 20 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRa integration Tian et al. 63 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration WT/V337M This paper N/A Human WTC11 iPSC with Ngn2 transgene integration V337M/V337M Gilbert et al. 77 N/A Oligonucleotides Primers for sequencing; see Table S1 This paper N/A Primers for qPCR; see Table S2 This paper N/A Recombinant DNA pMD2.G Didier Trono Addgene #12259 pMDLg/pRRE Didier Trono Addgene #12251 pRSV-REV Didier Trono Addgene #12253 pC13N-CLYBL-CAG-dCas9-BFP-KRAB Martin Kampmann Addgene #127968 pMK1334 Martin Kampmann Addgene #127965 pAJS1197 Cul5-3xFlag-T2A-mApple This paper N/A pAJS1203 GFP-3xFlag-T2A-mApple This paper N/A pAJS1205 GFP-Tau-1-50-T2A-mApple This paper N/A pAJS1206 GFP-Tau-40-90-T2A-mApple This paper N/A pAJS1207 GFP-Tau-80-130-T2A-mApple This paper N/A pAJS1208 GFP-Tau-120-170-T2A-mApple This paper N/A pAJS1209 GFP-Tau-160-210-T2A-mApple This paper N/A pAJS1210 GFP-Tau-200-250-T2A-mApple This paper N/A pAJS1211 GFP-Tau-240-290-T2A-mApple This paper N/A pAJS1212 GFP-Tau-280-352-T2A-mApple This paper N/A pAJS1172 GFP-Tau-Metless This paper N/A pAJS1184 GFP-Tau-T2A-mApple This paper N/A pAJS1154 GFP This paper N/A pAJS1149 GFP-Tau This paper N/A pZTC-13-R1 Jizhong Zou Addgene #62196 pZT-C13-L1 Jizhong Zou Addgene #62197 pAJS1224 pET-Duet EloBC Gift of John Gross, University of California, San Francisco Gift pAJS1228 His-Sumo-Tau-1-172 This paper N/A pAJS1229 His-Sumo-Tau-1-176 This paper N/A pIVM_26 Alessio Ciulli Addgene #204501 pAJS1200 SOCS4-3xFlag-T2A-mApple This paper N/A pAJS1216 GFP-Tau-80-130-IRES-mApple This paper N/A (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e3 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. Human iPSCs (in the male WTC11 background 79 ) were cultured in StemFlex Medium on BioLite Cell Culture Treated Dishes (Thermo Fisher Scientific; assorted Cat. No.) coated with Growth Factor Reduced, Phenol Red-Free, LDEV-Free Ma-trigel Basement Membrane Matrix (Corning; Cat. No. 356231) diluted 1:100 in Knockout DMEM (GIBCO/Thermo Fisher Scientific; Cat. No. 10829-018).

    Article Title: Signatures of omicron-like adaptation in early SARS-CoV-2 variants and chronic infection.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies fp.006 Bianchini et al.28 fp.007 Bianchini et al.28 Goat Anti-Human ACE2 primary antibody R&D Systems Cat#AF933; RRID:AB_355722 Donkey Anti-Goat IgG H&L secondary antibody Abcam #ab150131; RRID:AB_2732857 Anti-Human TMPRSS2 Alexa Fluor 488-conjugated antibody R&D Systems Cat#FAB10723G; RRID:AB_3645473 rabbit anti-SARS-CoV-2 Spike antibody Thermofisher Scientific Cat# PA1-41165; RRID:AB_1087210, LOT:WE3286564 mouse anti-HIV-1 p55/p24 BEI Resources Cat# ARP-3537; RRID:AB_3086785 mouse anti-Spike monoclonal GeneTex Cat# GTX632604; RRID:AB_2864418; clone 1A9 mouse anti-HA-tag Biolegend Cat# 901516; RRID:AB_2820200; clone 16B12 rabbit anti-p24 CFAR Cat#ARP432 mouse Anti-Alpha-Tubulin Sigma-Aldrich Cat#MABT205; RRID:AB_11204167; cloneDM1A Bacterial and virus strains XL10-Gold Ultracompetent Cells Agilent Cat#200314 Biological samples Human sera Chemicals, peptides, and recombinant proteins E64d Tocris Cat#4545 Camostat Sigma-Aldrich Cat#SML0057 Fugene HD Transfection Reagent Promega Cat#E2311 Fugene 6 Transfection Reagent Promega Cat#E2691 Cell lyisis buffer Cell Signaling Technology Cat#9803 Critical commercial assays Bright-Glo Promega Cat#E2650 QuikChange Lightning Agilent Cat#210518 QuantiTect SYBR Green PCR Kit Qiagen Cat#204143 Clarity Western ECL Substrate Bio-Rad Cat#1705061 Amersham ECL Prime Cytivia Cat#RPN2232 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 HEK293T-GFP11 Leo James N/A Vero-GFP1-10 Leo James N/A CaLu-3 Paul Lehner N/A HeLa-ACE2 James Voss N/A A549-ACE2/TMPRSS2 Massimo Palmarini N/A Caco-2 ATCC HTB-37 Experimental models: Organisms/strains Human serum samples from SARS-CoV-2 AdV vaccine recipients Collected at NIHR BioResource Center, Cambridge Oligonucleotides SARS-CoV-2_Spike_P812S_FWD:GCCCG ATCCTAGCAAGAGCAGCAAGCGGAGC This paper NA (Continued on next page) Cell Reports 44, 116135, August 26, 2025 15 ..

    Plasmid Preparation:

    Article Title: A combined enteric neuron-gastric tumor organoid reveals metabolic vulnerabilities in gastric cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER DMH-1 Tocris Cat#4126 Essential 6 medium Gibco Cat#A1516401 CTS TM N-2 supplement Gibco Cat#A1370701 MEM Non-essential amino acids solution Gibco Cat#11140050 Recombinant human GDNF Peprotech Cat#450-10 FGF2 Stemgent Cat#03-0002 Accutase Life Technologies Cat#A11105-01 Poly-L-ornithine Merck Cat#P4957 Geltrex LDEV-Free, hESC-Qualified, reduced growth factor basement membrane matrix Gibco Cat#A1413302 Zeocin TM Invitrogen Cat#R25001 Puromycin InvivoGen Cat#ant-pr-1 Ampicillin Gold Biotechnology Cat#A30125 Opti-MEMTM Gibco Cat#31985070 PEI transfection reagent MedChemExpress Cat#HY-K2014 Dimethyl sulfoxide Sigma-Aldrich Cat#D2650 5-Fluorouracil Sigma-Aldrich Cat#F6627 IACS-010759 Cayman Cat#25867 IM-156 Cayman Cat#34763 ND630 Cayman Cat#23961 ND646 Cayman Cat#34764 Ro 48-8071 fumarate MedChemExpress Cat#HY-18630A MG-132 Sigma-Aldrich Cat#474790 Rotenone Cayman Cat#13995 TVB-2640 Cayman Cat#35703 BSA Control for BSA-Fatty Acid Complexes Cayman Cat#29556 BSA-Palmitate Saturated Fatty Acid Complex Cayman Cat#29558 BSA-Oleate Monounsaturated Fatty Acid Complex Cayman Cat#29557 Acetylcholine Merck Cat#A2661 Acetate Millipore Cat#567422 Serotonin hydrochloride MedChemExpress Cat#HY-B1473 GABA MedChemExpress Cat#HY-N0067 Dopamine hydrochloride MedChemExpress Cat#HY-B0451A VIP MedChemExpress Cat#HY-P1023 Neuropeptide Y MedChemExpress Cat#HY-P1601 Substance P MedChemExpress Cat#HY-P0201 TNF-α MedChemExpress Cat#HY-P1860 QuickExtractTM DNA Extraction Solution Biosearch Technologies Cat#QE09050 D-Luciferin, Potassium Salt Gold Biotechnology Cat#LUCK-1G Tween 80 Sigma-Aldrich Cat#P1754 PEG 400 Polysciences Cat#25322-68-3 Pierce ECL Western Blotting Substrate Thermo Scientific Cat#32106 Critical commercial assays MiniBEST Plasmid Purification Kit TaKaRa Cat#9760 Plasmid Midi Kit QIAGEN Cat#12145 DNeasy Blood & Tissue Kit QIAGEN Cat#69506 MiniBEST Universal RNA Extraction Kit TaKaRa Cat#9767 Agencourt AMPure XP beads Beckman Coulter Cat#A63881 Cell titer-Glo® Luminescent Cell Viability Assay Promega Cat#G7572 Kapa HiFi HotStart ReadyMix Kapa Biosystems Cat#KK2602 (Continued on next page) Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER KAPA mRNA HyperPrep Kit Kapa Biosystems Cat#KK8580 SYBR® Premix Ex TaqTM TaKaRa Cat#RR420 Free Fatty Acid Quantification Assay Kit Abcam Cat#ab65341 Triglyceride Quantification Assay Kit Abcam Cat# ab65336 Deposited data RNA-seq data This study GEO:GSE303453 Data S1 This study Mendeley: https://doi.org/10.17632/8xh8sx232r.1 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Gastric cancer cell lines Suet Yi Leung Laboratory N/A Patient-derived GC organoid lines Yan et al. 15 and Tong et al, 16 N/A H9 hESC Kathryn Song Eng Cheah Laboratory N/A Experimental models: Organisms/strains BALB/cAnN-nu mice Charles River Laborattory N/A NOD/SCID mice Charles River Laborattory N/A Oligonucleotides See Methods S1 for sgRNA sequences This study N/A See Methods S1 for qRT-PCR primers This study N/A Recombinant DNA See Methods S1 for plasmid constructs This study N/A Software and algorithms RStudio v4.3.2 RStudio https://www.r-project.org/ MAGeCK v0.5.9 Li et al. 18 https://sourceforge.net/p/mageck/wiki/Home/ BAGEL Hart et al. 79 https://github.com/hart-lab/bagel CRISPRcleanR Iorio et al. 80 https://github.com/francescojm/CRISPRcleanR CoRe Vinceti et al. 81 https://github.com/DepMap-Analytics/CoRe/ tree/master Chronos Dempster et al. 22 https://github.com/broadinstitute/chronos JACKS Allen et al. 82 https://github.com/felicityallen/JACKS DrugZ Colic et al 83 https://github.com/hart-lab/drugz sva v3.34.0 Leek et al. 84 https://bioconductor.org/packages/release/bioc/ html/sva.html ShinyGO 0.76 Ge et al. 85 http://bioinformatics.sdstate.edu/go76/ GSEA Broad Institute https://www.gsea-msigdb.org/gsea/msigdb/ index.jsp Rsubread Liao et al. 86 https://bioconductor.org/packages/release/bioc/ html/Rsubread.html edgeR Robinson et al. 87 https://bioconductor.org/packages/release/bioc/ html/edgeR.html limma Ritchie et al. 88 https://bioconductor.org/packages/release/bioc/ html/limma.html STAR v2.7.11b Dobin et al. 89 https://github.com/alexdobin/STAR/tree/master STAR-Fusion v1.7.0 Hass et al. 90 https://github.com/STAR-Fusion/STAR- Fusion/wiki CTAT-splicing v0.0.3 National Cancer Institute https://github.com/TrinityCTAT/ CTAT-SPLICING/wiki rMATS v4.1.1 Shen et al. 91 https://github.com/Xinglab/rmats-turbo Image J Schneider et al. 92 https://imagej.net/ij/ FlowJo v10.8.1 BD Biosciences https://www.flowjo.com/ SPSS v25 IBM https://www.ibm.com/products/spss GraphPad Prism 9 GraphPad https://www.graphpad.com/ e3 Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 ..

    Construct:

    Article Title: A combined enteric neuron-gastric tumor organoid reveals metabolic vulnerabilities in gastric cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER DMH-1 Tocris Cat#4126 Essential 6 medium Gibco Cat#A1516401 CTS TM N-2 supplement Gibco Cat#A1370701 MEM Non-essential amino acids solution Gibco Cat#11140050 Recombinant human GDNF Peprotech Cat#450-10 FGF2 Stemgent Cat#03-0002 Accutase Life Technologies Cat#A11105-01 Poly-L-ornithine Merck Cat#P4957 Geltrex LDEV-Free, hESC-Qualified, reduced growth factor basement membrane matrix Gibco Cat#A1413302 Zeocin TM Invitrogen Cat#R25001 Puromycin InvivoGen Cat#ant-pr-1 Ampicillin Gold Biotechnology Cat#A30125 Opti-MEMTM Gibco Cat#31985070 PEI transfection reagent MedChemExpress Cat#HY-K2014 Dimethyl sulfoxide Sigma-Aldrich Cat#D2650 5-Fluorouracil Sigma-Aldrich Cat#F6627 IACS-010759 Cayman Cat#25867 IM-156 Cayman Cat#34763 ND630 Cayman Cat#23961 ND646 Cayman Cat#34764 Ro 48-8071 fumarate MedChemExpress Cat#HY-18630A MG-132 Sigma-Aldrich Cat#474790 Rotenone Cayman Cat#13995 TVB-2640 Cayman Cat#35703 BSA Control for BSA-Fatty Acid Complexes Cayman Cat#29556 BSA-Palmitate Saturated Fatty Acid Complex Cayman Cat#29558 BSA-Oleate Monounsaturated Fatty Acid Complex Cayman Cat#29557 Acetylcholine Merck Cat#A2661 Acetate Millipore Cat#567422 Serotonin hydrochloride MedChemExpress Cat#HY-B1473 GABA MedChemExpress Cat#HY-N0067 Dopamine hydrochloride MedChemExpress Cat#HY-B0451A VIP MedChemExpress Cat#HY-P1023 Neuropeptide Y MedChemExpress Cat#HY-P1601 Substance P MedChemExpress Cat#HY-P0201 TNF-α MedChemExpress Cat#HY-P1860 QuickExtractTM DNA Extraction Solution Biosearch Technologies Cat#QE09050 D-Luciferin, Potassium Salt Gold Biotechnology Cat#LUCK-1G Tween 80 Sigma-Aldrich Cat#P1754 PEG 400 Polysciences Cat#25322-68-3 Pierce ECL Western Blotting Substrate Thermo Scientific Cat#32106 Critical commercial assays MiniBEST Plasmid Purification Kit TaKaRa Cat#9760 Plasmid Midi Kit QIAGEN Cat#12145 DNeasy Blood & Tissue Kit QIAGEN Cat#69506 MiniBEST Universal RNA Extraction Kit TaKaRa Cat#9767 Agencourt AMPure XP beads Beckman Coulter Cat#A63881 Cell titer-Glo® Luminescent Cell Viability Assay Promega Cat#G7572 Kapa HiFi HotStart ReadyMix Kapa Biosystems Cat#KK2602 (Continued on next page) Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER KAPA mRNA HyperPrep Kit Kapa Biosystems Cat#KK8580 SYBR® Premix Ex TaqTM TaKaRa Cat#RR420 Free Fatty Acid Quantification Assay Kit Abcam Cat#ab65341 Triglyceride Quantification Assay Kit Abcam Cat# ab65336 Deposited data RNA-seq data This study GEO:GSE303453 Data S1 This study Mendeley: https://doi.org/10.17632/8xh8sx232r.1 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Gastric cancer cell lines Suet Yi Leung Laboratory N/A Patient-derived GC organoid lines Yan et al. 15 and Tong et al, 16 N/A H9 hESC Kathryn Song Eng Cheah Laboratory N/A Experimental models: Organisms/strains BALB/cAnN-nu mice Charles River Laborattory N/A NOD/SCID mice Charles River Laborattory N/A Oligonucleotides See Methods S1 for sgRNA sequences This study N/A See Methods S1 for qRT-PCR primers This study N/A Recombinant DNA See Methods S1 for plasmid constructs This study N/A Software and algorithms RStudio v4.3.2 RStudio https://www.r-project.org/ MAGeCK v0.5.9 Li et al. 18 https://sourceforge.net/p/mageck/wiki/Home/ BAGEL Hart et al. 79 https://github.com/hart-lab/bagel CRISPRcleanR Iorio et al. 80 https://github.com/francescojm/CRISPRcleanR CoRe Vinceti et al. 81 https://github.com/DepMap-Analytics/CoRe/ tree/master Chronos Dempster et al. 22 https://github.com/broadinstitute/chronos JACKS Allen et al. 82 https://github.com/felicityallen/JACKS DrugZ Colic et al 83 https://github.com/hart-lab/drugz sva v3.34.0 Leek et al. 84 https://bioconductor.org/packages/release/bioc/ html/sva.html ShinyGO 0.76 Ge et al. 85 http://bioinformatics.sdstate.edu/go76/ GSEA Broad Institute https://www.gsea-msigdb.org/gsea/msigdb/ index.jsp Rsubread Liao et al. 86 https://bioconductor.org/packages/release/bioc/ html/Rsubread.html edgeR Robinson et al. 87 https://bioconductor.org/packages/release/bioc/ html/edgeR.html limma Ritchie et al. 88 https://bioconductor.org/packages/release/bioc/ html/limma.html STAR v2.7.11b Dobin et al. 89 https://github.com/alexdobin/STAR/tree/master STAR-Fusion v1.7.0 Hass et al. 90 https://github.com/STAR-Fusion/STAR- Fusion/wiki CTAT-splicing v0.0.3 National Cancer Institute https://github.com/TrinityCTAT/ CTAT-SPLICING/wiki rMATS v4.1.1 Shen et al. 91 https://github.com/Xinglab/rmats-turbo Image J Schneider et al. 92 https://imagej.net/ij/ FlowJo v10.8.1 BD Biosciences https://www.flowjo.com/ SPSS v25 IBM https://www.ibm.com/products/spss GraphPad Prism 9 GraphPad https://www.graphpad.com/ e3 Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 ..

    Software:

    Article Title: A combined enteric neuron-gastric tumor organoid reveals metabolic vulnerabilities in gastric cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER DMH-1 Tocris Cat#4126 Essential 6 medium Gibco Cat#A1516401 CTS TM N-2 supplement Gibco Cat#A1370701 MEM Non-essential amino acids solution Gibco Cat#11140050 Recombinant human GDNF Peprotech Cat#450-10 FGF2 Stemgent Cat#03-0002 Accutase Life Technologies Cat#A11105-01 Poly-L-ornithine Merck Cat#P4957 Geltrex LDEV-Free, hESC-Qualified, reduced growth factor basement membrane matrix Gibco Cat#A1413302 Zeocin TM Invitrogen Cat#R25001 Puromycin InvivoGen Cat#ant-pr-1 Ampicillin Gold Biotechnology Cat#A30125 Opti-MEMTM Gibco Cat#31985070 PEI transfection reagent MedChemExpress Cat#HY-K2014 Dimethyl sulfoxide Sigma-Aldrich Cat#D2650 5-Fluorouracil Sigma-Aldrich Cat#F6627 IACS-010759 Cayman Cat#25867 IM-156 Cayman Cat#34763 ND630 Cayman Cat#23961 ND646 Cayman Cat#34764 Ro 48-8071 fumarate MedChemExpress Cat#HY-18630A MG-132 Sigma-Aldrich Cat#474790 Rotenone Cayman Cat#13995 TVB-2640 Cayman Cat#35703 BSA Control for BSA-Fatty Acid Complexes Cayman Cat#29556 BSA-Palmitate Saturated Fatty Acid Complex Cayman Cat#29558 BSA-Oleate Monounsaturated Fatty Acid Complex Cayman Cat#29557 Acetylcholine Merck Cat#A2661 Acetate Millipore Cat#567422 Serotonin hydrochloride MedChemExpress Cat#HY-B1473 GABA MedChemExpress Cat#HY-N0067 Dopamine hydrochloride MedChemExpress Cat#HY-B0451A VIP MedChemExpress Cat#HY-P1023 Neuropeptide Y MedChemExpress Cat#HY-P1601 Substance P MedChemExpress Cat#HY-P0201 TNF-α MedChemExpress Cat#HY-P1860 QuickExtractTM DNA Extraction Solution Biosearch Technologies Cat#QE09050 D-Luciferin, Potassium Salt Gold Biotechnology Cat#LUCK-1G Tween 80 Sigma-Aldrich Cat#P1754 PEG 400 Polysciences Cat#25322-68-3 Pierce ECL Western Blotting Substrate Thermo Scientific Cat#32106 Critical commercial assays MiniBEST Plasmid Purification Kit TaKaRa Cat#9760 Plasmid Midi Kit QIAGEN Cat#12145 DNeasy Blood & Tissue Kit QIAGEN Cat#69506 MiniBEST Universal RNA Extraction Kit TaKaRa Cat#9767 Agencourt AMPure XP beads Beckman Coulter Cat#A63881 Cell titer-Glo® Luminescent Cell Viability Assay Promega Cat#G7572 Kapa HiFi HotStart ReadyMix Kapa Biosystems Cat#KK2602 (Continued on next page) Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER KAPA mRNA HyperPrep Kit Kapa Biosystems Cat#KK8580 SYBR® Premix Ex TaqTM TaKaRa Cat#RR420 Free Fatty Acid Quantification Assay Kit Abcam Cat#ab65341 Triglyceride Quantification Assay Kit Abcam Cat# ab65336 Deposited data RNA-seq data This study GEO:GSE303453 Data S1 This study Mendeley: https://doi.org/10.17632/8xh8sx232r.1 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Gastric cancer cell lines Suet Yi Leung Laboratory N/A Patient-derived GC organoid lines Yan et al. 15 and Tong et al, 16 N/A H9 hESC Kathryn Song Eng Cheah Laboratory N/A Experimental models: Organisms/strains BALB/cAnN-nu mice Charles River Laborattory N/A NOD/SCID mice Charles River Laborattory N/A Oligonucleotides See Methods S1 for sgRNA sequences This study N/A See Methods S1 for qRT-PCR primers This study N/A Recombinant DNA See Methods S1 for plasmid constructs This study N/A Software and algorithms RStudio v4.3.2 RStudio https://www.r-project.org/ MAGeCK v0.5.9 Li et al. 18 https://sourceforge.net/p/mageck/wiki/Home/ BAGEL Hart et al. 79 https://github.com/hart-lab/bagel CRISPRcleanR Iorio et al. 80 https://github.com/francescojm/CRISPRcleanR CoRe Vinceti et al. 81 https://github.com/DepMap-Analytics/CoRe/ tree/master Chronos Dempster et al. 22 https://github.com/broadinstitute/chronos JACKS Allen et al. 82 https://github.com/felicityallen/JACKS DrugZ Colic et al 83 https://github.com/hart-lab/drugz sva v3.34.0 Leek et al. 84 https://bioconductor.org/packages/release/bioc/ html/sva.html ShinyGO 0.76 Ge et al. 85 http://bioinformatics.sdstate.edu/go76/ GSEA Broad Institute https://www.gsea-msigdb.org/gsea/msigdb/ index.jsp Rsubread Liao et al. 86 https://bioconductor.org/packages/release/bioc/ html/Rsubread.html edgeR Robinson et al. 87 https://bioconductor.org/packages/release/bioc/ html/edgeR.html limma Ritchie et al. 88 https://bioconductor.org/packages/release/bioc/ html/limma.html STAR v2.7.11b Dobin et al. 89 https://github.com/alexdobin/STAR/tree/master STAR-Fusion v1.7.0 Hass et al. 90 https://github.com/STAR-Fusion/STAR- Fusion/wiki CTAT-splicing v0.0.3 National Cancer Institute https://github.com/TrinityCTAT/ CTAT-SPLICING/wiki rMATS v4.1.1 Shen et al. 91 https://github.com/Xinglab/rmats-turbo Image J Schneider et al. 92 https://imagej.net/ij/ FlowJo v10.8.1 BD Biosciences https://www.flowjo.com/ SPSS v25 IBM https://www.ibm.com/products/spss GraphPad Prism 9 GraphPad https://www.graphpad.com/ e3 Cell Stem Cell 32, 1–19.e1–e10, October 2, 2025 ..

    Article Title: Keratinocyte differentiation transcription factor ZNF750 coordinates the development of epidermal immunocytes.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies APC anti-mouse CD45 BioLegend Cat#103111; RRID:AB_312976 APC anti-mouse F4/80 BioLegend Cat#23116; RRID:AB_893481 Rabbit anti-COL17A GeneTex Cat#GTX64247 Anti Rabbit Alexa Fluor 594 Jackson ImmunoResearch Cat# 711-585-152; RRID:AB_2340621 PerCP anti-mouse CD45 BioLegend Cat#103130; RRID:AB_893339 PE/Cyanine7 anti-mouse/human CD11b BioLegend Cat#101216; RRID:AB_312799 APC/Cyanine7 anti-mouse CX3CR1 BioLegend Cat#149048 PE anti-mouse F4/80 BioLegend Cat#123109; RRID:AB_893498 APC anti-mouse CD11c eBiosciences Cat#17-0114-81; RRID:AB_469345 PE anti-mouse CD3e BioLegend Cat#100206; RRID:AB_312663 APC anti-mouse I-A/I-E BioLegend Cat#107613; RRID:AB_313328 APC anti-Annexin V BioLegend Cat#640920 FITC anti-mouse Ki67 BioLegend Cat#652410 Bacterial and virus strains E. Coli, strain DH5α Thermo Fisher Scientific Cat#18265017 Chemicals, peptides, and recombinant proteins DMEM Sartorius Cat#01-052-1A KGM Gold Lonza Cat#00192060 DPBS, (− ) calcium, (− ) magnisum Sartorius Cat#02-023-1A Pen/Strep/Nystatin Sartorius Cat#03-032-1B fetal bovine serum) FBS( Thermo Fisher Scientific Cat#10270106 Trypsin-EDTA Sigma Cat#T4049 Dispase II Gibco Cat #17105041 Tissue Freezing Medium Leica Cat#14020108926 Triton X-100 Sigma Cat#T9284 Goat serum Sigma Cat#G6767 Bovine serum albumin (BSA) Sigma Cat#A8022 Gelatin Sigma Cat#G7041 DAPI Sigma Cat#32670 Collagenase type I Worthington Biochemical Cat#LS004196 EDTA Sartorius Cat#01-862-1B HEPES Sartorius Cat#03-025-1B TWEEN 20 Sigma Cat#P9416 Paraformaldehyde (PFA) Thermo Fisher Scientific Cat#043368.9M Critical commercial assays pGEM-T Easy Vector Systems Promega Cat#A1360 TriRNA Pure Kit Geneaid Biotech Cat#TRPD200 AzuraQuant II cDNA Synthesis Kit Azura Genomics Cat#AZ-2504 LightCycler 480 SYBR Green I Master Mix Roche Cat#04887352001 PolyJet In Vitro DNA Transfection Reagent SignaGen Cat#SL100688 Phusion High-Fidelity DNA polymerase New England Biolabs Cat#M0530S Neon NxT Electroporation System Thermo Fisher Scientific Cat#N1096 Dual-Luciferase Reporter Assay System Promega Cat#E1910 (Continued on next page) 10 Cell Reports 44, 116648, December 23, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq data Schwartz et al. 18 GEO: GSE235032 RNA-seq data Swindell et al. 32 GEO: GSE67785 RNA-seq data Deng et al. 33 GEO: GSE186063 RNA-seq data Tsoi et al. 31 GEO: GSE121212 ChIP-seq data (ZNF750) Boxer et al. 16 GEO: GSE57702 RNA-seq; CUT&RUN data (H3K27ac, H3K4me3) Oss-Ronen et al. 36 GEO: GSE261573 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Primary normal human epidermal keratinocytes Lonza Cat#00192907 Experimental models: Organisms/strains Mouse: Znf750 flox/flox Idan Cohen Lab 18 N/A Mouse: Tg(Krt14-Cre)1Amc/J Jackson Labs Strain#004782 Oligonucleotides See Table S3 N/A N/A Recombinant DNA pHAGE-ZNF750 This Paper N/A pHDM-Hgpm2 Addgene Cat#164441 pRC-CMV-Rev1b Addgene Cat#164443 pHDM-Tat1b Addgene Cat#164442 pHDM-VSV-G Addgene Cat#164440 pGL4.23 Promega Cat# E8411 pGL4.23-eIL34 This Paper N/A pGL4.23-eIL34_Δ ZNF750 This Paper N/A Software and algorithms NeatSeq-Flow platform Sklarz et al. 37 https://neatseq-flow.readthedocs.io/en/latest/ Trim Galore v0.4.5 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ Cutadapt v1.15 DOI:https://doi.org/ 10.14806/ej.17.1.200 https://cutadapt.readthedocs.io/en/v1.15/index.html STAR v2.5.2a Dobin et al. 38 N/A RSEM v1.2.28 Li et al. 39 https://deweylab.github.io/RSEM/ FASTQC v0.11.8 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/fastqc/ MultiQC v1.0.dev0 Ewels et al. 40 https://seqera.io/multiqc/ DESeq2 Love et al. 41 https://bioconductor.org/packages/devel/ bioc/html/DESeq2.html Heatmapper Babicki et al. 42 http://www.heatmapper.ca./ DAVID Sherman et al. 43 https://davidbioinformatics.nih.gov/home.jsp Cellsens standard Olympus https://evidentscientific.com/en/products/ software/cellsens Kaluza Analysis 2.1 Beckman Coulter https://www.beckman.co.il/flow-cytometry/ software/kaluza ChIP-Atlas platform v3.0 Zou et al. 44 https://chip-atlas.org/ Integrative Genomics Viewer (IGV) Broad Institute http://software.broadinstitute.org/software/igv/ GraphPad Prism 8.0.2 GraphPad https://www.graphpad.com/ BioRender https://app.biorender.com/ Cell Reports 44, 116648, December 23, 2025 11 ..

    other:

    Article Title: Bile acids regulate lipid metabolism through selective actions on fatty acid absorption.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER GLC96 Lipid Standards (mixed lipid standards) Nu-chek Prep Cat# GLC96 GLC96C Lipid Standards (mixed lipid standards) Nu-chek Prep Cat# GLC96C Deuterium oxide Sigma Aldrich Cat# 151882; Cas: 7789-20-0 Sucrose Polybehenate CarboMer Cas: 56449-50-4 coumarin 6 Sigma Aldrich Cat#442631; Cas: 38215-36-0 1,2-dioleoyl-sn-glycero-3-phosphocholine Avanti Polar Lipids Cat#850375; Cas: 4235-95-4 C18:0-d2 Cayman Cat#28150; Cas: 19905-58-9 C18:1-d17 Cayman Cat#9000432; Cas: 223487-44-3 C18:2-d11 Cayman Cat#9002193 GlutaMAX ThermoFisher Scientific Cat#35050061 N2 supplement Fisher Scientific Cat#17502-048 B27 supplement Fisher Scientific Cat#17504404 EGF Peprotech Cat#315-09; Cas: 62253-63-8 A83-01 Med Chem Express Cat#HY-10432; Cas: 909910-43-6 SB202190 Med Chem Express Cat#HY10295; Cas: 152121-03-7 Y-27632 Med Chem Express Cat#HY-10071; Cas: 146986-50-7 CHIR99021 Stem Cell Technologies Cat#72054; Cat: 252917-06-9 IGF-1 Med Chem Express Cat#HY-P70788 FGF2 Med Chem Express Cat#HY-P7004 Gastrin Med Chem Express Cat#HY-P2671 BMP-2 Med Chem Express Cat#HY-P7006 BMP-4 Med Chem Express Cat#HY-P7007 Orlistat TCI America Cat# O0381; Cas: 96829-58-2 Protease inhibitor cocktail tablets Med Chem Express Cat# HY-K0011 Phenylmethanesulfonyl fluoride Sigma Aldrich Cat#93482-50mL-F; Cas: 329-98-6 Calpain Inhibitor Sigma Aldrich Cat# A6185-25 mg; Cas: 110044-82-1 Critical commercial assays U-PLEX Custom Metabolic Group 1 Meso Scale Discovery Cat#K152ACM-1 Teco Diagnostics ALT Liquid Reagent Kinetic Method Kit Teco Diagnostics Cat# A524-150 DNeasy PowerSoil Pro Kit Qiagen Cat#47126 Qubit 1X dsDNA HS Assay Kit Invitrogen Cat#Q33231 Illumina DNA Prep workflow Invitrogen Cat#20060059 KAPA Pure Beads Roche Cat#07983271001 RNeasy mini kit Qiagen Cat#74104 KAPA RNA Hyperprep Kit KAPA Biosystems Cat# KK8541 KAPA Unique Duel-Indexed Adaptor Kit KAPA Biosystems Cat# KK8727 Bicinchoninic acid protein assay Fisher Cat#PI23227 Deposited data Microbiome Sequencing Data NCBI BioProject PRJNA1302405 Bulk Liver RNA Sequencing Data NCBI GEO GSE304800 Source Data This Paper Data S1 Experimental models: Cell lines HEK293T ATCC Cat#CRL-3216 De-identified human jejunal enteroids Dr. Martin Martin, UCLA N/A Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Jax: 000664 (Continued on next page) e2 Cell Metabolism 38, 1–18.e1–e10, January 6, 2026

    cDNA Synthesis:

    Article Title: cGAS attenuates hypoxia-inducible factor signaling via chaperone-mediated autophagic degradation of HIFα.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Myc Santa Cruz Cat #sc-40 Rabbit monoclonal anti-Myc Abclonal Cat#AE070 Mouse monoclonal anti-HA Covance Cat #901515 Mouse monoclonal anti-Flag Sigma-Aldrich Cat #F1804 Mouse monoclonal anti-β-actin Abclonal Cat #AC206 Rabbit monoclonal anti-cGAS Cell Signaling Technology Cat #31659 Mouse monoclonal anti-cGAS Santa Cruz Cat #sc-515777 Rabbit monoclonal anti- HIF1α Cell Signaling Technology Cat#36169 Fluorescein conjugated Anti-PI (4,5) P2 IgM Echelon Biosciences Cat#Z-G045 Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Mouse monoclonal anti-LAMP2A Santa Cruz Cat# sc-18822 Mouse monoclonal anti-HSC70 Santa Cruz Cat# sc-7298 Rabbit monoclonal anti-ATG5 Cell Signaling Technology Cat# 9980S Rabbit monoclonal anti-BECKLIN-1 Cell Signaling Technology Cat# 3495S normal rabbit IgG Cell Signaling Technology Cat#2729 normal mouse IgG Cell Signaling Technology Cat#68860 Rabbit monoclonal anti-Phospho-IRF3 (Ser396) Cell Signaling Technology Cat# 29047S Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Rabbit monoclonal anti-HIF1β Cell Signaling Technology Cat#5537 Alexa Fluor 594 goat anti-mouse IgG ThermoFisher Scientific Cat #A11005 Alexa Fluor 647 goat anti-rabbit IgG ThermoFisher Scientific Cat #A21245 Na+/K + -ATPase Rabbit pAb Abclonal Cat#A12405 Mouse monoclonal anti-p65 Cell Signaling Technology Cat#6956 Rabbit monoclonal anti-Flag Abclonal Cat # AE092 Chemicals, peptides, and recombinant proteins DMSO Sigma-Aldrich Cat#D2650 β-Mercaptoethanol GEN-VIEW Cat#GM195 NH4CL Sigma-Aldrich Cat#326372 MG132 Sigma-Aldrich Cat #474790 Bafilomycin A1 MedChemExpress Cat#HY-100558 Chloroquine MedChemExpress HY-17589A 3MA Sigma-Aldrich Cat# 189490 Cycloheximide (CHX) MedChemExpress Cat#HY-12320 PX478 Selleck Cat#S7612 CoCl2 Sigma-Aldrich Cat#C8661 DAPI Thermo Fisher Cat#62248 RNAiso plus Takara Cat# 9109 Rhodamine Phalloidin ABclonal Cat#RM02835 Lipofectamine 2000 Reagent Thermo Fisher Cat# 1668019 Transfection Reagent VigoFect Vigorous Biotech Cat#T001 Protease Inhibitor Cocktail Bimake Cat#B14001 HT-DNA Sigma-Aldrich Cat#D6898 Recombinant Human GM-CSF PeproTech Cat#315-03 Recombinant Human M-CSF PeproTech Cat#315-02 (Continued on next page) Cell Reports 45, 117377, June 23, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER Benzonase Nuclease Servicebio Cat#G3461 Critical commercial assays Revert Aid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 SYBR Green qRCR Mix (High ROX) Monad Biotech Cat# MQ10301S Anti-Flag Ab–conjugated agarose beads YEASEN Cat#A2220 Anti-Myc Ab–conjugated agarose beads YEASEN Cat#A7470 Protein G Sepharose GE HealthCare Company Cat#17-0618-01 Mouse Epo ELISA kit R&D Systems Cat#MEP00B Experimental models: Cell lines HEK293T ATCC Cat #CRL-11268 H1299 ATCC Cat #CRL-5803 THP-1 ATCC Cat #TIB-202 cGas− /− BMDCs This paper N/A cGas− /− BMDMs This paper N/A cGas− /− MLFs This paper N/A CGAS/LAMP2A-knockdown-THP-1 This paper N/A CGAS/HSC70-knockdown-THP-1 This paper N/A LAMP2A-knockdown-THP-1 This paper N/A HSC70-knockdown-THP-1 This paper N/A CGAS-knockdown-THP-1 This paper N/A pHAGE-Myc-cGAS-THP-1 This paper N/A HIF1β-knockout H1299 This paper N/A cGAS-knockout H1299 This paper N/A VHL-knockout H1299 This paper N/A cGAS/p65-knockdown-H1299 This paper N/A p65-knockdown-H1299 This paper N/A Bacterial strains E.coli BL21 Transgen Biotech Cat# CD601 Oligonucleotides The cGAS-gRNA targeting sequence: 5′-CGATGGATCCCACCGAGTCT-3′ This paper N/A The HSC70- gRNA targeting sequence: 5′- TTCAGTGTCCGTAAAGGCGA-3’ This paper N/A The LAMP2A- gRNA targeting sequence: 5′- GCACATATAAGAACTTCCCA-3’ This paper N/A The zebrafish-cgas-gRNA targeting sequence: 5′-GGCTCTGTTCATAAAAAAAC-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-1: 5′AGGGCCTCTACAAGGTGTTCTGG-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-2: 5′-GTGTGCTATTAGGAACTGATGG-3′ This paper N/A The HIF-1α-siRNA targeting sequence: 5′-CCGUAUGGAAGACAUUAAATT-3′ This paper N/A Primers for RT-PCR and identification, see Table S2 This paper N/A The p65- gRNA targeting sequence: 5′- GGGGGTGAGGCCGGTGAGGA-3’ This paper N/A Recombinant DNA pCMV-Myc Clonteck Cat #K6003-1 pCMV-HA Clonteck Cat #631604 pCMV-Flag This paper N/A (Continued on next page) 18 Cell Reports 45, 117377, June 23, 2026 ..

    SYBR Green Assay:

    Article Title: cGAS attenuates hypoxia-inducible factor signaling via chaperone-mediated autophagic degradation of HIFα.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Myc Santa Cruz Cat #sc-40 Rabbit monoclonal anti-Myc Abclonal Cat#AE070 Mouse monoclonal anti-HA Covance Cat #901515 Mouse monoclonal anti-Flag Sigma-Aldrich Cat #F1804 Mouse monoclonal anti-β-actin Abclonal Cat #AC206 Rabbit monoclonal anti-cGAS Cell Signaling Technology Cat #31659 Mouse monoclonal anti-cGAS Santa Cruz Cat #sc-515777 Rabbit monoclonal anti- HIF1α Cell Signaling Technology Cat#36169 Fluorescein conjugated Anti-PI (4,5) P2 IgM Echelon Biosciences Cat#Z-G045 Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Mouse monoclonal anti-LAMP2A Santa Cruz Cat# sc-18822 Mouse monoclonal anti-HSC70 Santa Cruz Cat# sc-7298 Rabbit monoclonal anti-ATG5 Cell Signaling Technology Cat# 9980S Rabbit monoclonal anti-BECKLIN-1 Cell Signaling Technology Cat# 3495S normal rabbit IgG Cell Signaling Technology Cat#2729 normal mouse IgG Cell Signaling Technology Cat#68860 Rabbit monoclonal anti-Phospho-IRF3 (Ser396) Cell Signaling Technology Cat# 29047S Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Rabbit monoclonal anti-HIF1β Cell Signaling Technology Cat#5537 Alexa Fluor 594 goat anti-mouse IgG ThermoFisher Scientific Cat #A11005 Alexa Fluor 647 goat anti-rabbit IgG ThermoFisher Scientific Cat #A21245 Na+/K + -ATPase Rabbit pAb Abclonal Cat#A12405 Mouse monoclonal anti-p65 Cell Signaling Technology Cat#6956 Rabbit monoclonal anti-Flag Abclonal Cat # AE092 Chemicals, peptides, and recombinant proteins DMSO Sigma-Aldrich Cat#D2650 β-Mercaptoethanol GEN-VIEW Cat#GM195 NH4CL Sigma-Aldrich Cat#326372 MG132 Sigma-Aldrich Cat #474790 Bafilomycin A1 MedChemExpress Cat#HY-100558 Chloroquine MedChemExpress HY-17589A 3MA Sigma-Aldrich Cat# 189490 Cycloheximide (CHX) MedChemExpress Cat#HY-12320 PX478 Selleck Cat#S7612 CoCl2 Sigma-Aldrich Cat#C8661 DAPI Thermo Fisher Cat#62248 RNAiso plus Takara Cat# 9109 Rhodamine Phalloidin ABclonal Cat#RM02835 Lipofectamine 2000 Reagent Thermo Fisher Cat# 1668019 Transfection Reagent VigoFect Vigorous Biotech Cat#T001 Protease Inhibitor Cocktail Bimake Cat#B14001 HT-DNA Sigma-Aldrich Cat#D6898 Recombinant Human GM-CSF PeproTech Cat#315-03 Recombinant Human M-CSF PeproTech Cat#315-02 (Continued on next page) Cell Reports 45, 117377, June 23, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER Benzonase Nuclease Servicebio Cat#G3461 Critical commercial assays Revert Aid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 SYBR Green qRCR Mix (High ROX) Monad Biotech Cat# MQ10301S Anti-Flag Ab–conjugated agarose beads YEASEN Cat#A2220 Anti-Myc Ab–conjugated agarose beads YEASEN Cat#A7470 Protein G Sepharose GE HealthCare Company Cat#17-0618-01 Mouse Epo ELISA kit R&D Systems Cat#MEP00B Experimental models: Cell lines HEK293T ATCC Cat #CRL-11268 H1299 ATCC Cat #CRL-5803 THP-1 ATCC Cat #TIB-202 cGas− /− BMDCs This paper N/A cGas− /− BMDMs This paper N/A cGas− /− MLFs This paper N/A CGAS/LAMP2A-knockdown-THP-1 This paper N/A CGAS/HSC70-knockdown-THP-1 This paper N/A LAMP2A-knockdown-THP-1 This paper N/A HSC70-knockdown-THP-1 This paper N/A CGAS-knockdown-THP-1 This paper N/A pHAGE-Myc-cGAS-THP-1 This paper N/A HIF1β-knockout H1299 This paper N/A cGAS-knockout H1299 This paper N/A VHL-knockout H1299 This paper N/A cGAS/p65-knockdown-H1299 This paper N/A p65-knockdown-H1299 This paper N/A Bacterial strains E.coli BL21 Transgen Biotech Cat# CD601 Oligonucleotides The cGAS-gRNA targeting sequence: 5′-CGATGGATCCCACCGAGTCT-3′ This paper N/A The HSC70- gRNA targeting sequence: 5′- TTCAGTGTCCGTAAAGGCGA-3’ This paper N/A The LAMP2A- gRNA targeting sequence: 5′- GCACATATAAGAACTTCCCA-3’ This paper N/A The zebrafish-cgas-gRNA targeting sequence: 5′-GGCTCTGTTCATAAAAAAAC-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-1: 5′AGGGCCTCTACAAGGTGTTCTGG-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-2: 5′-GTGTGCTATTAGGAACTGATGG-3′ This paper N/A The HIF-1α-siRNA targeting sequence: 5′-CCGUAUGGAAGACAUUAAATT-3′ This paper N/A Primers for RT-PCR and identification, see Table S2 This paper N/A The p65- gRNA targeting sequence: 5′- GGGGGTGAGGCCGGTGAGGA-3’ This paper N/A Recombinant DNA pCMV-Myc Clonteck Cat #K6003-1 pCMV-HA Clonteck Cat #631604 pCMV-Flag This paper N/A (Continued on next page) 18 Cell Reports 45, 117377, June 23, 2026 ..

    Article Title: Signatures of omicron-like adaptation in early SARS-CoV-2 variants and chronic infection.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies fp.006 Bianchini et al.28 fp.007 Bianchini et al.28 Goat Anti-Human ACE2 primary antibody R&D Systems Cat#AF933; RRID:AB_355722 Donkey Anti-Goat IgG H&L secondary antibody Abcam #ab150131; RRID:AB_2732857 Anti-Human TMPRSS2 Alexa Fluor 488-conjugated antibody R&D Systems Cat#FAB10723G; RRID:AB_3645473 rabbit anti-SARS-CoV-2 Spike antibody Thermofisher Scientific Cat# PA1-41165; RRID:AB_1087210, LOT:WE3286564 mouse anti-HIV-1 p55/p24 BEI Resources Cat# ARP-3537; RRID:AB_3086785 mouse anti-Spike monoclonal GeneTex Cat# GTX632604; RRID:AB_2864418; clone 1A9 mouse anti-HA-tag Biolegend Cat# 901516; RRID:AB_2820200; clone 16B12 rabbit anti-p24 CFAR Cat#ARP432 mouse Anti-Alpha-Tubulin Sigma-Aldrich Cat#MABT205; RRID:AB_11204167; cloneDM1A Bacterial and virus strains XL10-Gold Ultracompetent Cells Agilent Cat#200314 Biological samples Human sera Chemicals, peptides, and recombinant proteins E64d Tocris Cat#4545 Camostat Sigma-Aldrich Cat#SML0057 Fugene HD Transfection Reagent Promega Cat#E2311 Fugene 6 Transfection Reagent Promega Cat#E2691 Cell lyisis buffer Cell Signaling Technology Cat#9803 Critical commercial assays Bright-Glo Promega Cat#E2650 QuikChange Lightning Agilent Cat#210518 QuantiTect SYBR Green PCR Kit Qiagen Cat#204143 Clarity Western ECL Substrate Bio-Rad Cat#1705061 Amersham ECL Prime Cytivia Cat#RPN2232 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 HEK293T-GFP11 Leo James N/A Vero-GFP1-10 Leo James N/A CaLu-3 Paul Lehner N/A HeLa-ACE2 James Voss N/A A549-ACE2/TMPRSS2 Massimo Palmarini N/A Caco-2 ATCC HTB-37 Experimental models: Organisms/strains Human serum samples from SARS-CoV-2 AdV vaccine recipients Collected at NIHR BioResource Center, Cambridge Oligonucleotides SARS-CoV-2_Spike_P812S_FWD:GCCCG ATCCTAGCAAGAGCAGCAAGCGGAGC This paper NA (Continued on next page) Cell Reports 44, 116135, August 26, 2025 15 ..

    Enzyme-linked Immunosorbent Assay:

    Article Title: cGAS attenuates hypoxia-inducible factor signaling via chaperone-mediated autophagic degradation of HIFα.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Myc Santa Cruz Cat #sc-40 Rabbit monoclonal anti-Myc Abclonal Cat#AE070 Mouse monoclonal anti-HA Covance Cat #901515 Mouse monoclonal anti-Flag Sigma-Aldrich Cat #F1804 Mouse monoclonal anti-β-actin Abclonal Cat #AC206 Rabbit monoclonal anti-cGAS Cell Signaling Technology Cat #31659 Mouse monoclonal anti-cGAS Santa Cruz Cat #sc-515777 Rabbit monoclonal anti- HIF1α Cell Signaling Technology Cat#36169 Fluorescein conjugated Anti-PI (4,5) P2 IgM Echelon Biosciences Cat#Z-G045 Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Mouse monoclonal anti-LAMP2A Santa Cruz Cat# sc-18822 Mouse monoclonal anti-HSC70 Santa Cruz Cat# sc-7298 Rabbit monoclonal anti-ATG5 Cell Signaling Technology Cat# 9980S Rabbit monoclonal anti-BECKLIN-1 Cell Signaling Technology Cat# 3495S normal rabbit IgG Cell Signaling Technology Cat#2729 normal mouse IgG Cell Signaling Technology Cat#68860 Rabbit monoclonal anti-Phospho-IRF3 (Ser396) Cell Signaling Technology Cat# 29047S Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Rabbit monoclonal anti-HIF1β Cell Signaling Technology Cat#5537 Alexa Fluor 594 goat anti-mouse IgG ThermoFisher Scientific Cat #A11005 Alexa Fluor 647 goat anti-rabbit IgG ThermoFisher Scientific Cat #A21245 Na+/K + -ATPase Rabbit pAb Abclonal Cat#A12405 Mouse monoclonal anti-p65 Cell Signaling Technology Cat#6956 Rabbit monoclonal anti-Flag Abclonal Cat # AE092 Chemicals, peptides, and recombinant proteins DMSO Sigma-Aldrich Cat#D2650 β-Mercaptoethanol GEN-VIEW Cat#GM195 NH4CL Sigma-Aldrich Cat#326372 MG132 Sigma-Aldrich Cat #474790 Bafilomycin A1 MedChemExpress Cat#HY-100558 Chloroquine MedChemExpress HY-17589A 3MA Sigma-Aldrich Cat# 189490 Cycloheximide (CHX) MedChemExpress Cat#HY-12320 PX478 Selleck Cat#S7612 CoCl2 Sigma-Aldrich Cat#C8661 DAPI Thermo Fisher Cat#62248 RNAiso plus Takara Cat# 9109 Rhodamine Phalloidin ABclonal Cat#RM02835 Lipofectamine 2000 Reagent Thermo Fisher Cat# 1668019 Transfection Reagent VigoFect Vigorous Biotech Cat#T001 Protease Inhibitor Cocktail Bimake Cat#B14001 HT-DNA Sigma-Aldrich Cat#D6898 Recombinant Human GM-CSF PeproTech Cat#315-03 Recombinant Human M-CSF PeproTech Cat#315-02 (Continued on next page) Cell Reports 45, 117377, June 23, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER Benzonase Nuclease Servicebio Cat#G3461 Critical commercial assays Revert Aid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 SYBR Green qRCR Mix (High ROX) Monad Biotech Cat# MQ10301S Anti-Flag Ab–conjugated agarose beads YEASEN Cat#A2220 Anti-Myc Ab–conjugated agarose beads YEASEN Cat#A7470 Protein G Sepharose GE HealthCare Company Cat#17-0618-01 Mouse Epo ELISA kit R&D Systems Cat#MEP00B Experimental models: Cell lines HEK293T ATCC Cat #CRL-11268 H1299 ATCC Cat #CRL-5803 THP-1 ATCC Cat #TIB-202 cGas− /− BMDCs This paper N/A cGas− /− BMDMs This paper N/A cGas− /− MLFs This paper N/A CGAS/LAMP2A-knockdown-THP-1 This paper N/A CGAS/HSC70-knockdown-THP-1 This paper N/A LAMP2A-knockdown-THP-1 This paper N/A HSC70-knockdown-THP-1 This paper N/A CGAS-knockdown-THP-1 This paper N/A pHAGE-Myc-cGAS-THP-1 This paper N/A HIF1β-knockout H1299 This paper N/A cGAS-knockout H1299 This paper N/A VHL-knockout H1299 This paper N/A cGAS/p65-knockdown-H1299 This paper N/A p65-knockdown-H1299 This paper N/A Bacterial strains E.coli BL21 Transgen Biotech Cat# CD601 Oligonucleotides The cGAS-gRNA targeting sequence: 5′-CGATGGATCCCACCGAGTCT-3′ This paper N/A The HSC70- gRNA targeting sequence: 5′- TTCAGTGTCCGTAAAGGCGA-3’ This paper N/A The LAMP2A- gRNA targeting sequence: 5′- GCACATATAAGAACTTCCCA-3’ This paper N/A The zebrafish-cgas-gRNA targeting sequence: 5′-GGCTCTGTTCATAAAAAAAC-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-1: 5′AGGGCCTCTACAAGGTGTTCTGG-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-2: 5′-GTGTGCTATTAGGAACTGATGG-3′ This paper N/A The HIF-1α-siRNA targeting sequence: 5′-CCGUAUGGAAGACAUUAAATT-3′ This paper N/A Primers for RT-PCR and identification, see Table S2 This paper N/A The p65- gRNA targeting sequence: 5′- GGGGGTGAGGCCGGTGAGGA-3’ This paper N/A Recombinant DNA pCMV-Myc Clonteck Cat #K6003-1 pCMV-HA Clonteck Cat #631604 pCMV-Flag This paper N/A (Continued on next page) 18 Cell Reports 45, 117377, June 23, 2026 ..

    Sequencing:

    Article Title: cGAS attenuates hypoxia-inducible factor signaling via chaperone-mediated autophagic degradation of HIFα.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Myc Santa Cruz Cat #sc-40 Rabbit monoclonal anti-Myc Abclonal Cat#AE070 Mouse monoclonal anti-HA Covance Cat #901515 Mouse monoclonal anti-Flag Sigma-Aldrich Cat #F1804 Mouse monoclonal anti-β-actin Abclonal Cat #AC206 Rabbit monoclonal anti-cGAS Cell Signaling Technology Cat #31659 Mouse monoclonal anti-cGAS Santa Cruz Cat #sc-515777 Rabbit monoclonal anti- HIF1α Cell Signaling Technology Cat#36169 Fluorescein conjugated Anti-PI (4,5) P2 IgM Echelon Biosciences Cat#Z-G045 Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Mouse monoclonal anti-LAMP2A Santa Cruz Cat# sc-18822 Mouse monoclonal anti-HSC70 Santa Cruz Cat# sc-7298 Rabbit monoclonal anti-ATG5 Cell Signaling Technology Cat# 9980S Rabbit monoclonal anti-BECKLIN-1 Cell Signaling Technology Cat# 3495S normal rabbit IgG Cell Signaling Technology Cat#2729 normal mouse IgG Cell Signaling Technology Cat#68860 Rabbit monoclonal anti-Phospho-IRF3 (Ser396) Cell Signaling Technology Cat# 29047S Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Rabbit monoclonal anti-HIF1β Cell Signaling Technology Cat#5537 Alexa Fluor 594 goat anti-mouse IgG ThermoFisher Scientific Cat #A11005 Alexa Fluor 647 goat anti-rabbit IgG ThermoFisher Scientific Cat #A21245 Na+/K + -ATPase Rabbit pAb Abclonal Cat#A12405 Mouse monoclonal anti-p65 Cell Signaling Technology Cat#6956 Rabbit monoclonal anti-Flag Abclonal Cat # AE092 Chemicals, peptides, and recombinant proteins DMSO Sigma-Aldrich Cat#D2650 β-Mercaptoethanol GEN-VIEW Cat#GM195 NH4CL Sigma-Aldrich Cat#326372 MG132 Sigma-Aldrich Cat #474790 Bafilomycin A1 MedChemExpress Cat#HY-100558 Chloroquine MedChemExpress HY-17589A 3MA Sigma-Aldrich Cat# 189490 Cycloheximide (CHX) MedChemExpress Cat#HY-12320 PX478 Selleck Cat#S7612 CoCl2 Sigma-Aldrich Cat#C8661 DAPI Thermo Fisher Cat#62248 RNAiso plus Takara Cat# 9109 Rhodamine Phalloidin ABclonal Cat#RM02835 Lipofectamine 2000 Reagent Thermo Fisher Cat# 1668019 Transfection Reagent VigoFect Vigorous Biotech Cat#T001 Protease Inhibitor Cocktail Bimake Cat#B14001 HT-DNA Sigma-Aldrich Cat#D6898 Recombinant Human GM-CSF PeproTech Cat#315-03 Recombinant Human M-CSF PeproTech Cat#315-02 (Continued on next page) Cell Reports 45, 117377, June 23, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER Benzonase Nuclease Servicebio Cat#G3461 Critical commercial assays Revert Aid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 SYBR Green qRCR Mix (High ROX) Monad Biotech Cat# MQ10301S Anti-Flag Ab–conjugated agarose beads YEASEN Cat#A2220 Anti-Myc Ab–conjugated agarose beads YEASEN Cat#A7470 Protein G Sepharose GE HealthCare Company Cat#17-0618-01 Mouse Epo ELISA kit R&D Systems Cat#MEP00B Experimental models: Cell lines HEK293T ATCC Cat #CRL-11268 H1299 ATCC Cat #CRL-5803 THP-1 ATCC Cat #TIB-202 cGas− /− BMDCs This paper N/A cGas− /− BMDMs This paper N/A cGas− /− MLFs This paper N/A CGAS/LAMP2A-knockdown-THP-1 This paper N/A CGAS/HSC70-knockdown-THP-1 This paper N/A LAMP2A-knockdown-THP-1 This paper N/A HSC70-knockdown-THP-1 This paper N/A CGAS-knockdown-THP-1 This paper N/A pHAGE-Myc-cGAS-THP-1 This paper N/A HIF1β-knockout H1299 This paper N/A cGAS-knockout H1299 This paper N/A VHL-knockout H1299 This paper N/A cGAS/p65-knockdown-H1299 This paper N/A p65-knockdown-H1299 This paper N/A Bacterial strains E.coli BL21 Transgen Biotech Cat# CD601 Oligonucleotides The cGAS-gRNA targeting sequence: 5′-CGATGGATCCCACCGAGTCT-3′ This paper N/A The HSC70- gRNA targeting sequence: 5′- TTCAGTGTCCGTAAAGGCGA-3’ This paper N/A The LAMP2A- gRNA targeting sequence: 5′- GCACATATAAGAACTTCCCA-3’ This paper N/A The zebrafish-cgas-gRNA targeting sequence: 5′-GGCTCTGTTCATAAAAAAAC-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-1: 5′AGGGCCTCTACAAGGTGTTCTGG-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-2: 5′-GTGTGCTATTAGGAACTGATGG-3′ This paper N/A The HIF-1α-siRNA targeting sequence: 5′-CCGUAUGGAAGACAUUAAATT-3′ This paper N/A Primers for RT-PCR and identification, see Table S2 This paper N/A The p65- gRNA targeting sequence: 5′- GGGGGTGAGGCCGGTGAGGA-3’ This paper N/A Recombinant DNA pCMV-Myc Clonteck Cat #K6003-1 pCMV-HA Clonteck Cat #631604 pCMV-Flag This paper N/A (Continued on next page) 18 Cell Reports 45, 117377, June 23, 2026 ..

    Article Title: CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Actin Cell Signaling Cat#4970 Mouse anti-Actin Cell Signaling Cat#3700 Rabbit anti-GFP Chromotek Cat#pabg1 Mouse anti-GFP Santa Cruz Biotech Cat#sc-9996 Mouse anti-GAPDH Santa Cruz Biotech Cat#sc-32233 Rabbit anti-tau oligomer (T22) Rakez Kayed, The University of Texas Medical Branch at Galveston Gift Rabbit anti-tau oligomer (M204) David Eisenberg, University of California, Los Angeles N/A Mouse anti-tau oligomer (TOC1) Nicholas Kanaan, Michigan State University N/A Rabbit anti-tau oligomer (T22-I) EMD Millipore Cat#ABN454-I Rabbit anti-tau oligomer (TTC18) Li Gan, Weill Cornell Medical School Gift Mouse anti-tau (Tau13) Santa Cruz Biotech Cat#21796 Mouse anti-tau (HT7) Thermo Fisher Scientific Cat#MN1000 Rabbit anti-tau DAKO Cat#05-803 Biotin anti-tau, 6-18 antibody (Tau12) Biolegend Cat#806506 Pierce Streptavidin Poly-HRP Thermo Fisher Scientific Cat#21140 Mouse anti-NeuN Biolegend Cat#SIG-39860 Mouse anti-Rbx2 (RNF7) Santa Cruz Biotech Cat#166554 Rabbit anti-ELOB ProteinTech Cat#A0024 Rabbit anti-Histone H3 Cell Signaling Cat#4499 Rabbit anti-PSD95 Cell Signaling Cat#3450 Goat anti-rabbit 680 LICOR Cat#926-32210 Goat anti-mouse 800 LICOR Cat#926-68071 Anti-mouse IgG, HRP-linked Cell Signaling Cat#7076 Anti-rabbit IgG, HRP-linked Cell Signaling Cat#7074 Rabbit anti-FLAG Cell Signaling Cat#14793 Mouse anti-HA Cell Signaling Cat#2367 Mouse anti-PSMA2 Thermo Fisher Scientific Cat#MA5-26149 Mouse anti PSMA1-3,5-7 Abcam Cat#MCP231 Rabbit anti PSMD11 Cell Signaling Cat#14303 Rabbit anti-CUL5 Atlas Antibodies Cat#HPA002185 Bacterial or virus strains DH5alpha Thermo Fisher Scientific Cat#18265017 BL21(DE3) Thermo Fisher Scientific Cat#EC0114 MegaX DH10B T1 R Thermo Fisher Scientific Cat#C640003 Chemicals, peptides, and recombinant proteins StemFlex Media Thermo Fisher Scientific Cat#A3349401 Y-27632 Stem Cell Technologies Cat#72308 Matrigel hESC-Qualified Matrix Corning Cat#354277 Doxycycline hyclate (Dox) Sigma-Aldrich Cat#D9891 Brain-derived neurotrophic factor (BDNF) PeproTech Cat#450-02 Neurotrophin-3 (NT-3) PeproTech Cat#450-03 (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e1 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zymo Gigaprep kit Zymo Cat#D4204 Poly-D-Lysine Culture Dishes Corning Cat#354550 Universal Mycoplasma Detection Kit ATCC Cat#30-1012K Deposited data Raw and processed data (bulk CRISPR-screen data) This paper N/A Experimental models: Cell lines HEK293T ATCC CatCRL-11268 Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration Tian et al. 20 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRa integration Tian et al. 63 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration WT/V337M This paper N/A Human WTC11 iPSC with Ngn2 transgene integration V337M/V337M Gilbert et al. 77 N/A Oligonucleotides Primers for sequencing; see Table S1 This paper N/A Primers for qPCR; see Table S2 This paper N/A Recombinant DNA pMD2.G Didier Trono Addgene #12259 pMDLg/pRRE Didier Trono Addgene #12251 pRSV-REV Didier Trono Addgene #12253 pC13N-CLYBL-CAG-dCas9-BFP-KRAB Martin Kampmann Addgene #127968 pMK1334 Martin Kampmann Addgene #127965 pAJS1197 Cul5-3xFlag-T2A-mApple This paper N/A pAJS1203 GFP-3xFlag-T2A-mApple This paper N/A pAJS1205 GFP-Tau-1-50-T2A-mApple This paper N/A pAJS1206 GFP-Tau-40-90-T2A-mApple This paper N/A pAJS1207 GFP-Tau-80-130-T2A-mApple This paper N/A pAJS1208 GFP-Tau-120-170-T2A-mApple This paper N/A pAJS1209 GFP-Tau-160-210-T2A-mApple This paper N/A pAJS1210 GFP-Tau-200-250-T2A-mApple This paper N/A pAJS1211 GFP-Tau-240-290-T2A-mApple This paper N/A pAJS1212 GFP-Tau-280-352-T2A-mApple This paper N/A pAJS1172 GFP-Tau-Metless This paper N/A pAJS1184 GFP-Tau-T2A-mApple This paper N/A pAJS1154 GFP This paper N/A pAJS1149 GFP-Tau This paper N/A pZTC-13-R1 Jizhong Zou Addgene #62196 pZT-C13-L1 Jizhong Zou Addgene #62197 pAJS1224 pET-Duet EloBC Gift of John Gross, University of California, San Francisco Gift pAJS1228 His-Sumo-Tau-1-172 This paper N/A pAJS1229 His-Sumo-Tau-1-176 This paper N/A pIVM_26 Alessio Ciulli Addgene #204501 pAJS1200 SOCS4-3xFlag-T2A-mApple This paper N/A pAJS1216 GFP-Tau-80-130-IRES-mApple This paper N/A (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e3 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. Human iPSCs (in the male WTC11 background 79 ) were cultured in StemFlex Medium on BioLite Cell Culture Treated Dishes (Thermo Fisher Scientific; assorted Cat. No.) coated with Growth Factor Reduced, Phenol Red-Free, LDEV-Free Ma-trigel Basement Membrane Matrix (Corning; Cat. No. 356231) diluted 1:100 in Knockout DMEM (GIBCO/Thermo Fisher Scientific; Cat. No. 10829-018).

    Reverse Transcription Polymerase Chain Reaction:

    Article Title: cGAS attenuates hypoxia-inducible factor signaling via chaperone-mediated autophagic degradation of HIFα.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Myc Santa Cruz Cat #sc-40 Rabbit monoclonal anti-Myc Abclonal Cat#AE070 Mouse monoclonal anti-HA Covance Cat #901515 Mouse monoclonal anti-Flag Sigma-Aldrich Cat #F1804 Mouse monoclonal anti-β-actin Abclonal Cat #AC206 Rabbit monoclonal anti-cGAS Cell Signaling Technology Cat #31659 Mouse monoclonal anti-cGAS Santa Cruz Cat #sc-515777 Rabbit monoclonal anti- HIF1α Cell Signaling Technology Cat#36169 Fluorescein conjugated Anti-PI (4,5) P2 IgM Echelon Biosciences Cat#Z-G045 Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Mouse monoclonal anti-LAMP2A Santa Cruz Cat# sc-18822 Mouse monoclonal anti-HSC70 Santa Cruz Cat# sc-7298 Rabbit monoclonal anti-ATG5 Cell Signaling Technology Cat# 9980S Rabbit monoclonal anti-BECKLIN-1 Cell Signaling Technology Cat# 3495S normal rabbit IgG Cell Signaling Technology Cat#2729 normal mouse IgG Cell Signaling Technology Cat#68860 Rabbit monoclonal anti-Phospho-IRF3 (Ser396) Cell Signaling Technology Cat# 29047S Rabbit monoclonal anti-HIF2α Cell Signaling Technology Cat#7096 Rabbit monoclonal anti-HIF1β Cell Signaling Technology Cat#5537 Alexa Fluor 594 goat anti-mouse IgG ThermoFisher Scientific Cat #A11005 Alexa Fluor 647 goat anti-rabbit IgG ThermoFisher Scientific Cat #A21245 Na+/K + -ATPase Rabbit pAb Abclonal Cat#A12405 Mouse monoclonal anti-p65 Cell Signaling Technology Cat#6956 Rabbit monoclonal anti-Flag Abclonal Cat # AE092 Chemicals, peptides, and recombinant proteins DMSO Sigma-Aldrich Cat#D2650 β-Mercaptoethanol GEN-VIEW Cat#GM195 NH4CL Sigma-Aldrich Cat#326372 MG132 Sigma-Aldrich Cat #474790 Bafilomycin A1 MedChemExpress Cat#HY-100558 Chloroquine MedChemExpress HY-17589A 3MA Sigma-Aldrich Cat# 189490 Cycloheximide (CHX) MedChemExpress Cat#HY-12320 PX478 Selleck Cat#S7612 CoCl2 Sigma-Aldrich Cat#C8661 DAPI Thermo Fisher Cat#62248 RNAiso plus Takara Cat# 9109 Rhodamine Phalloidin ABclonal Cat#RM02835 Lipofectamine 2000 Reagent Thermo Fisher Cat# 1668019 Transfection Reagent VigoFect Vigorous Biotech Cat#T001 Protease Inhibitor Cocktail Bimake Cat#B14001 HT-DNA Sigma-Aldrich Cat#D6898 Recombinant Human GM-CSF PeproTech Cat#315-03 Recombinant Human M-CSF PeproTech Cat#315-02 (Continued on next page) Cell Reports 45, 117377, June 23, 2026 17 .. REAGENT or RESOURCE SOURCE IDENTIFIER Benzonase Nuclease Servicebio Cat#G3461 Critical commercial assays Revert Aid First Strand cDNA Synthesis Kit Thermo Fisher Cat# K1622 SYBR Green qRCR Mix (High ROX) Monad Biotech Cat# MQ10301S Anti-Flag Ab–conjugated agarose beads YEASEN Cat#A2220 Anti-Myc Ab–conjugated agarose beads YEASEN Cat#A7470 Protein G Sepharose GE HealthCare Company Cat#17-0618-01 Mouse Epo ELISA kit R&D Systems Cat#MEP00B Experimental models: Cell lines HEK293T ATCC Cat #CRL-11268 H1299 ATCC Cat #CRL-5803 THP-1 ATCC Cat #TIB-202 cGas− /− BMDCs This paper N/A cGas− /− BMDMs This paper N/A cGas− /− MLFs This paper N/A CGAS/LAMP2A-knockdown-THP-1 This paper N/A CGAS/HSC70-knockdown-THP-1 This paper N/A LAMP2A-knockdown-THP-1 This paper N/A HSC70-knockdown-THP-1 This paper N/A CGAS-knockdown-THP-1 This paper N/A pHAGE-Myc-cGAS-THP-1 This paper N/A HIF1β-knockout H1299 This paper N/A cGAS-knockout H1299 This paper N/A VHL-knockout H1299 This paper N/A cGAS/p65-knockdown-H1299 This paper N/A p65-knockdown-H1299 This paper N/A Bacterial strains E.coli BL21 Transgen Biotech Cat# CD601 Oligonucleotides The cGAS-gRNA targeting sequence: 5′-CGATGGATCCCACCGAGTCT-3′ This paper N/A The HSC70- gRNA targeting sequence: 5′- TTCAGTGTCCGTAAAGGCGA-3’ This paper N/A The LAMP2A- gRNA targeting sequence: 5′- GCACATATAAGAACTTCCCA-3’ This paper N/A The zebrafish-cgas-gRNA targeting sequence: 5′-GGCTCTGTTCATAAAAAAAC-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-1: 5′AGGGCCTCTACAAGGTGTTCTGG-3′ This paper N/A The mouse-cGas-gRNA targeting sequence-2: 5′-GTGTGCTATTAGGAACTGATGG-3′ This paper N/A The HIF-1α-siRNA targeting sequence: 5′-CCGUAUGGAAGACAUUAAATT-3′ This paper N/A Primers for RT-PCR and identification, see Table S2 This paper N/A The p65- gRNA targeting sequence: 5′- GGGGGTGAGGCCGGTGAGGA-3’ This paper N/A Recombinant DNA pCMV-Myc Clonteck Cat #K6003-1 pCMV-HA Clonteck Cat #631604 pCMV-Flag This paper N/A (Continued on next page) 18 Cell Reports 45, 117377, June 23, 2026 ..

    Chromatin Immunoprecipitation:

    Article Title: Keratinocyte differentiation transcription factor ZNF750 coordinates the development of epidermal immunocytes.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies APC anti-mouse CD45 BioLegend Cat#103111; RRID:AB_312976 APC anti-mouse F4/80 BioLegend Cat#23116; RRID:AB_893481 Rabbit anti-COL17A GeneTex Cat#GTX64247 Anti Rabbit Alexa Fluor 594 Jackson ImmunoResearch Cat# 711-585-152; RRID:AB_2340621 PerCP anti-mouse CD45 BioLegend Cat#103130; RRID:AB_893339 PE/Cyanine7 anti-mouse/human CD11b BioLegend Cat#101216; RRID:AB_312799 APC/Cyanine7 anti-mouse CX3CR1 BioLegend Cat#149048 PE anti-mouse F4/80 BioLegend Cat#123109; RRID:AB_893498 APC anti-mouse CD11c eBiosciences Cat#17-0114-81; RRID:AB_469345 PE anti-mouse CD3e BioLegend Cat#100206; RRID:AB_312663 APC anti-mouse I-A/I-E BioLegend Cat#107613; RRID:AB_313328 APC anti-Annexin V BioLegend Cat#640920 FITC anti-mouse Ki67 BioLegend Cat#652410 Bacterial and virus strains E. Coli, strain DH5α Thermo Fisher Scientific Cat#18265017 Chemicals, peptides, and recombinant proteins DMEM Sartorius Cat#01-052-1A KGM Gold Lonza Cat#00192060 DPBS, (− ) calcium, (− ) magnisum Sartorius Cat#02-023-1A Pen/Strep/Nystatin Sartorius Cat#03-032-1B fetal bovine serum) FBS( Thermo Fisher Scientific Cat#10270106 Trypsin-EDTA Sigma Cat#T4049 Dispase II Gibco Cat #17105041 Tissue Freezing Medium Leica Cat#14020108926 Triton X-100 Sigma Cat#T9284 Goat serum Sigma Cat#G6767 Bovine serum albumin (BSA) Sigma Cat#A8022 Gelatin Sigma Cat#G7041 DAPI Sigma Cat#32670 Collagenase type I Worthington Biochemical Cat#LS004196 EDTA Sartorius Cat#01-862-1B HEPES Sartorius Cat#03-025-1B TWEEN 20 Sigma Cat#P9416 Paraformaldehyde (PFA) Thermo Fisher Scientific Cat#043368.9M Critical commercial assays pGEM-T Easy Vector Systems Promega Cat#A1360 TriRNA Pure Kit Geneaid Biotech Cat#TRPD200 AzuraQuant II cDNA Synthesis Kit Azura Genomics Cat#AZ-2504 LightCycler 480 SYBR Green I Master Mix Roche Cat#04887352001 PolyJet In Vitro DNA Transfection Reagent SignaGen Cat#SL100688 Phusion High-Fidelity DNA polymerase New England Biolabs Cat#M0530S Neon NxT Electroporation System Thermo Fisher Scientific Cat#N1096 Dual-Luciferase Reporter Assay System Promega Cat#E1910 (Continued on next page) 10 Cell Reports 44, 116648, December 23, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq data Schwartz et al. 18 GEO: GSE235032 RNA-seq data Swindell et al. 32 GEO: GSE67785 RNA-seq data Deng et al. 33 GEO: GSE186063 RNA-seq data Tsoi et al. 31 GEO: GSE121212 ChIP-seq data (ZNF750) Boxer et al. 16 GEO: GSE57702 RNA-seq; CUT&RUN data (H3K27ac, H3K4me3) Oss-Ronen et al. 36 GEO: GSE261573 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 Primary normal human epidermal keratinocytes Lonza Cat#00192907 Experimental models: Organisms/strains Mouse: Znf750 flox/flox Idan Cohen Lab 18 N/A Mouse: Tg(Krt14-Cre)1Amc/J Jackson Labs Strain#004782 Oligonucleotides See Table S3 N/A N/A Recombinant DNA pHAGE-ZNF750 This Paper N/A pHDM-Hgpm2 Addgene Cat#164441 pRC-CMV-Rev1b Addgene Cat#164443 pHDM-Tat1b Addgene Cat#164442 pHDM-VSV-G Addgene Cat#164440 pGL4.23 Promega Cat# E8411 pGL4.23-eIL34 This Paper N/A pGL4.23-eIL34_Δ ZNF750 This Paper N/A Software and algorithms NeatSeq-Flow platform Sklarz et al. 37 https://neatseq-flow.readthedocs.io/en/latest/ Trim Galore v0.4.5 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/trim_galore/ Cutadapt v1.15 DOI:https://doi.org/ 10.14806/ej.17.1.200 https://cutadapt.readthedocs.io/en/v1.15/index.html STAR v2.5.2a Dobin et al. 38 N/A RSEM v1.2.28 Li et al. 39 https://deweylab.github.io/RSEM/ FASTQC v0.11.8 Babraham Institute https://www.bioinformatics.babraham.ac.uk/ projects/fastqc/ MultiQC v1.0.dev0 Ewels et al. 40 https://seqera.io/multiqc/ DESeq2 Love et al. 41 https://bioconductor.org/packages/devel/ bioc/html/DESeq2.html Heatmapper Babicki et al. 42 http://www.heatmapper.ca./ DAVID Sherman et al. 43 https://davidbioinformatics.nih.gov/home.jsp Cellsens standard Olympus https://evidentscientific.com/en/products/ software/cellsens Kaluza Analysis 2.1 Beckman Coulter https://www.beckman.co.il/flow-cytometry/ software/kaluza ChIP-Atlas platform v3.0 Zou et al. 44 https://chip-atlas.org/ Integrative Genomics Viewer (IGV) Broad Institute http://software.broadinstitute.org/software/igv/ GraphPad Prism 8.0.2 GraphPad https://www.graphpad.com/ BioRender https://app.biorender.com/ Cell Reports 44, 116648, December 23, 2025 11 ..

    CRISPR:

    Article Title: CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Actin Cell Signaling Cat#4970 Mouse anti-Actin Cell Signaling Cat#3700 Rabbit anti-GFP Chromotek Cat#pabg1 Mouse anti-GFP Santa Cruz Biotech Cat#sc-9996 Mouse anti-GAPDH Santa Cruz Biotech Cat#sc-32233 Rabbit anti-tau oligomer (T22) Rakez Kayed, The University of Texas Medical Branch at Galveston Gift Rabbit anti-tau oligomer (M204) David Eisenberg, University of California, Los Angeles N/A Mouse anti-tau oligomer (TOC1) Nicholas Kanaan, Michigan State University N/A Rabbit anti-tau oligomer (T22-I) EMD Millipore Cat#ABN454-I Rabbit anti-tau oligomer (TTC18) Li Gan, Weill Cornell Medical School Gift Mouse anti-tau (Tau13) Santa Cruz Biotech Cat#21796 Mouse anti-tau (HT7) Thermo Fisher Scientific Cat#MN1000 Rabbit anti-tau DAKO Cat#05-803 Biotin anti-tau, 6-18 antibody (Tau12) Biolegend Cat#806506 Pierce Streptavidin Poly-HRP Thermo Fisher Scientific Cat#21140 Mouse anti-NeuN Biolegend Cat#SIG-39860 Mouse anti-Rbx2 (RNF7) Santa Cruz Biotech Cat#166554 Rabbit anti-ELOB ProteinTech Cat#A0024 Rabbit anti-Histone H3 Cell Signaling Cat#4499 Rabbit anti-PSD95 Cell Signaling Cat#3450 Goat anti-rabbit 680 LICOR Cat#926-32210 Goat anti-mouse 800 LICOR Cat#926-68071 Anti-mouse IgG, HRP-linked Cell Signaling Cat#7076 Anti-rabbit IgG, HRP-linked Cell Signaling Cat#7074 Rabbit anti-FLAG Cell Signaling Cat#14793 Mouse anti-HA Cell Signaling Cat#2367 Mouse anti-PSMA2 Thermo Fisher Scientific Cat#MA5-26149 Mouse anti PSMA1-3,5-7 Abcam Cat#MCP231 Rabbit anti PSMD11 Cell Signaling Cat#14303 Rabbit anti-CUL5 Atlas Antibodies Cat#HPA002185 Bacterial or virus strains DH5alpha Thermo Fisher Scientific Cat#18265017 BL21(DE3) Thermo Fisher Scientific Cat#EC0114 MegaX DH10B T1 R Thermo Fisher Scientific Cat#C640003 Chemicals, peptides, and recombinant proteins StemFlex Media Thermo Fisher Scientific Cat#A3349401 Y-27632 Stem Cell Technologies Cat#72308 Matrigel hESC-Qualified Matrix Corning Cat#354277 Doxycycline hyclate (Dox) Sigma-Aldrich Cat#D9891 Brain-derived neurotrophic factor (BDNF) PeproTech Cat#450-02 Neurotrophin-3 (NT-3) PeproTech Cat#450-03 (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e1 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zymo Gigaprep kit Zymo Cat#D4204 Poly-D-Lysine Culture Dishes Corning Cat#354550 Universal Mycoplasma Detection Kit ATCC Cat#30-1012K Deposited data Raw and processed data (bulk CRISPR-screen data) This paper N/A Experimental models: Cell lines HEK293T ATCC CatCRL-11268 Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration Tian et al. 20 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRa integration Tian et al. 63 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration WT/V337M This paper N/A Human WTC11 iPSC with Ngn2 transgene integration V337M/V337M Gilbert et al. 77 N/A Oligonucleotides Primers for sequencing; see Table S1 This paper N/A Primers for qPCR; see Table S2 This paper N/A Recombinant DNA pMD2.G Didier Trono Addgene #12259 pMDLg/pRRE Didier Trono Addgene #12251 pRSV-REV Didier Trono Addgene #12253 pC13N-CLYBL-CAG-dCas9-BFP-KRAB Martin Kampmann Addgene #127968 pMK1334 Martin Kampmann Addgene #127965 pAJS1197 Cul5-3xFlag-T2A-mApple This paper N/A pAJS1203 GFP-3xFlag-T2A-mApple This paper N/A pAJS1205 GFP-Tau-1-50-T2A-mApple This paper N/A pAJS1206 GFP-Tau-40-90-T2A-mApple This paper N/A pAJS1207 GFP-Tau-80-130-T2A-mApple This paper N/A pAJS1208 GFP-Tau-120-170-T2A-mApple This paper N/A pAJS1209 GFP-Tau-160-210-T2A-mApple This paper N/A pAJS1210 GFP-Tau-200-250-T2A-mApple This paper N/A pAJS1211 GFP-Tau-240-290-T2A-mApple This paper N/A pAJS1212 GFP-Tau-280-352-T2A-mApple This paper N/A pAJS1172 GFP-Tau-Metless This paper N/A pAJS1184 GFP-Tau-T2A-mApple This paper N/A pAJS1154 GFP This paper N/A pAJS1149 GFP-Tau This paper N/A pZTC-13-R1 Jizhong Zou Addgene #62196 pZT-C13-L1 Jizhong Zou Addgene #62197 pAJS1224 pET-Duet EloBC Gift of John Gross, University of California, San Francisco Gift pAJS1228 His-Sumo-Tau-1-172 This paper N/A pAJS1229 His-Sumo-Tau-1-176 This paper N/A pIVM_26 Alessio Ciulli Addgene #204501 pAJS1200 SOCS4-3xFlag-T2A-mApple This paper N/A pAJS1216 GFP-Tau-80-130-IRES-mApple This paper N/A (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e3 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. Human iPSCs (in the male WTC11 background 79 ) were cultured in StemFlex Medium on BioLite Cell Culture Treated Dishes (Thermo Fisher Scientific; assorted Cat. No.) coated with Growth Factor Reduced, Phenol Red-Free, LDEV-Free Ma-trigel Basement Membrane Matrix (Corning; Cat. No. 356231) diluted 1:100 in Knockout DMEM (GIBCO/Thermo Fisher Scientific; Cat. No. 10829-018).

    Real-time Polymerase Chain Reaction:

    Article Title: CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Actin Cell Signaling Cat#4970 Mouse anti-Actin Cell Signaling Cat#3700 Rabbit anti-GFP Chromotek Cat#pabg1 Mouse anti-GFP Santa Cruz Biotech Cat#sc-9996 Mouse anti-GAPDH Santa Cruz Biotech Cat#sc-32233 Rabbit anti-tau oligomer (T22) Rakez Kayed, The University of Texas Medical Branch at Galveston Gift Rabbit anti-tau oligomer (M204) David Eisenberg, University of California, Los Angeles N/A Mouse anti-tau oligomer (TOC1) Nicholas Kanaan, Michigan State University N/A Rabbit anti-tau oligomer (T22-I) EMD Millipore Cat#ABN454-I Rabbit anti-tau oligomer (TTC18) Li Gan, Weill Cornell Medical School Gift Mouse anti-tau (Tau13) Santa Cruz Biotech Cat#21796 Mouse anti-tau (HT7) Thermo Fisher Scientific Cat#MN1000 Rabbit anti-tau DAKO Cat#05-803 Biotin anti-tau, 6-18 antibody (Tau12) Biolegend Cat#806506 Pierce Streptavidin Poly-HRP Thermo Fisher Scientific Cat#21140 Mouse anti-NeuN Biolegend Cat#SIG-39860 Mouse anti-Rbx2 (RNF7) Santa Cruz Biotech Cat#166554 Rabbit anti-ELOB ProteinTech Cat#A0024 Rabbit anti-Histone H3 Cell Signaling Cat#4499 Rabbit anti-PSD95 Cell Signaling Cat#3450 Goat anti-rabbit 680 LICOR Cat#926-32210 Goat anti-mouse 800 LICOR Cat#926-68071 Anti-mouse IgG, HRP-linked Cell Signaling Cat#7076 Anti-rabbit IgG, HRP-linked Cell Signaling Cat#7074 Rabbit anti-FLAG Cell Signaling Cat#14793 Mouse anti-HA Cell Signaling Cat#2367 Mouse anti-PSMA2 Thermo Fisher Scientific Cat#MA5-26149 Mouse anti PSMA1-3,5-7 Abcam Cat#MCP231 Rabbit anti PSMD11 Cell Signaling Cat#14303 Rabbit anti-CUL5 Atlas Antibodies Cat#HPA002185 Bacterial or virus strains DH5alpha Thermo Fisher Scientific Cat#18265017 BL21(DE3) Thermo Fisher Scientific Cat#EC0114 MegaX DH10B T1 R Thermo Fisher Scientific Cat#C640003 Chemicals, peptides, and recombinant proteins StemFlex Media Thermo Fisher Scientific Cat#A3349401 Y-27632 Stem Cell Technologies Cat#72308 Matrigel hESC-Qualified Matrix Corning Cat#354277 Doxycycline hyclate (Dox) Sigma-Aldrich Cat#D9891 Brain-derived neurotrophic factor (BDNF) PeproTech Cat#450-02 Neurotrophin-3 (NT-3) PeproTech Cat#450-03 (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e1 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zymo Gigaprep kit Zymo Cat#D4204 Poly-D-Lysine Culture Dishes Corning Cat#354550 Universal Mycoplasma Detection Kit ATCC Cat#30-1012K Deposited data Raw and processed data (bulk CRISPR-screen data) This paper N/A Experimental models: Cell lines HEK293T ATCC CatCRL-11268 Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration Tian et al. 20 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRa integration Tian et al. 63 N/A Human WTC11 iPSC with Ngn2 transgene and CRISPRi integration WT/V337M This paper N/A Human WTC11 iPSC with Ngn2 transgene integration V337M/V337M Gilbert et al. 77 N/A Oligonucleotides Primers for sequencing; see Table S1 This paper N/A Primers for qPCR; see Table S2 This paper N/A Recombinant DNA pMD2.G Didier Trono Addgene #12259 pMDLg/pRRE Didier Trono Addgene #12251 pRSV-REV Didier Trono Addgene #12253 pC13N-CLYBL-CAG-dCas9-BFP-KRAB Martin Kampmann Addgene #127968 pMK1334 Martin Kampmann Addgene #127965 pAJS1197 Cul5-3xFlag-T2A-mApple This paper N/A pAJS1203 GFP-3xFlag-T2A-mApple This paper N/A pAJS1205 GFP-Tau-1-50-T2A-mApple This paper N/A pAJS1206 GFP-Tau-40-90-T2A-mApple This paper N/A pAJS1207 GFP-Tau-80-130-T2A-mApple This paper N/A pAJS1208 GFP-Tau-120-170-T2A-mApple This paper N/A pAJS1209 GFP-Tau-160-210-T2A-mApple This paper N/A pAJS1210 GFP-Tau-200-250-T2A-mApple This paper N/A pAJS1211 GFP-Tau-240-290-T2A-mApple This paper N/A pAJS1212 GFP-Tau-280-352-T2A-mApple This paper N/A pAJS1172 GFP-Tau-Metless This paper N/A pAJS1184 GFP-Tau-T2A-mApple This paper N/A pAJS1154 GFP This paper N/A pAJS1149 GFP-Tau This paper N/A pZTC-13-R1 Jizhong Zou Addgene #62196 pZT-C13-L1 Jizhong Zou Addgene #62197 pAJS1224 pET-Duet EloBC Gift of John Gross, University of California, San Francisco Gift pAJS1228 His-Sumo-Tau-1-172 This paper N/A pAJS1229 His-Sumo-Tau-1-176 This paper N/A pIVM_26 Alessio Ciulli Addgene #204501 pAJS1200 SOCS4-3xFlag-T2A-mApple This paper N/A pAJS1216 GFP-Tau-80-130-IRES-mApple This paper N/A (Continued on next page) ll OPEN ACCESS Cell 189, 1–18.e1–e10, March 5, 2026 e3 Please cite this article in press as: Samelson et al., CRISPR screens in iPSC-derived neurons reveal principles of tau proteostasis, Cell (2026), https://doi.org/10.1016/j.cell.2025.12.038 Article .. Human iPSCs (in the male WTC11 background 79 ) were cultured in StemFlex Medium on BioLite Cell Culture Treated Dishes (Thermo Fisher Scientific; assorted Cat. No.) coated with Growth Factor Reduced, Phenol Red-Free, LDEV-Free Ma-trigel Basement Membrane Matrix (Corning; Cat. No. 356231) diluted 1:100 in Knockout DMEM (GIBCO/Thermo Fisher Scientific; Cat. No. 10829-018).

    Stable Transfection:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NCM BCA Protein Assay Kit NCM Biotech Cat#WB6501 ECL Chemiluminescent Substrate Reagent Kit Biosharp Cat#BL523B EndoFree Plasmid Midi Kit CWBIO Cat#CW2105S XF Cell Mito Stress Test Kit Agilent Cat#103015-100 Gel Extraction Kit CWBIO Cat#CW2302M DNA Clean-up Kit CWBIO Cat#CW2301M NanoTrans TM Transfection Reagent Plus CYTOCH Cat#CT0005 Lipofectamine 2000 Invitrogen Cat#52887 Lipofectamine 3000 Invitrogen Cat#100022052 Lipofectamine RNAiMAX Invitrogen Cat#56532 ClonExpress® II One Step Cloning Kit Vazyme Biotech Co., Ltd. Cat#C112 Deposited data .. Experimental models: Cell lines HEK293T ATCC CatCRL-3216; RRID:CVCL_0063 HeLa ATCC Cat#CCL-2; RRID:CVCL_0030 SH-SY5Y ATCC Cat#CRL-2266; RRID:CVCL_0019 HEK293A C1 Dr. Sharon A. Tooze N/A HEK293A WIPI2 KO Dr. Sharon A. Tooze N/A YPH WIPI2 KO Dr. Han-Ming Shen N/A HeLa stably expressing YFP-Parkin (YPH) Dr. Richard J. Youle N/A YPH PINK1-Myc This paper N/A YPH FLAG-VCP This paper N/A YPH lentiV2 This paper N/A YPH STUB1 KO This paper N/A YPH PLKO-WT This paper N/A YPH shVCP This paper N/A YPH mito-keima Dr. Richard J. Youle N/A YPH mito-keima STUB1 KO This paper N/A YPH Halo-EV This paper N/A YPH Halo-STUB1-WT This paper N/A YPH Halo-STUB1-ΔTRP This paper N/A Experimental models: Organisms/strains C. elegans (N2) Dr. Hilde Nilsen N/A C. elegans (N2 n-sid-1OV ) Described previously 78 N/A Oligonucleotides ..

    Expressing:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Critical commercial assays NCM BCA Protein Assay Kit NCM Biotech Cat#WB6501 ECL Chemiluminescent Substrate Reagent Kit Biosharp Cat#BL523B EndoFree Plasmid Midi Kit CWBIO Cat#CW2105S XF Cell Mito Stress Test Kit Agilent Cat#103015-100 Gel Extraction Kit CWBIO Cat#CW2302M DNA Clean-up Kit CWBIO Cat#CW2301M NanoTrans TM Transfection Reagent Plus CYTOCH Cat#CT0005 Lipofectamine 2000 Invitrogen Cat#52887 Lipofectamine 3000 Invitrogen Cat#100022052 Lipofectamine RNAiMAX Invitrogen Cat#56532 ClonExpress® II One Step Cloning Kit Vazyme Biotech Co., Ltd. Cat#C112 Deposited data .. Experimental models: Cell lines HEK293T ATCC CatCRL-3216; RRID:CVCL_0063 HeLa ATCC Cat#CCL-2; RRID:CVCL_0030 SH-SY5Y ATCC Cat#CRL-2266; RRID:CVCL_0019 HEK293A C1 Dr. Sharon A. Tooze N/A HEK293A WIPI2 KO Dr. Sharon A. Tooze N/A YPH WIPI2 KO Dr. Han-Ming Shen N/A HeLa stably expressing YFP-Parkin (YPH) Dr. Richard J. Youle N/A YPH PINK1-Myc This paper N/A YPH FLAG-VCP This paper N/A YPH lentiV2 This paper N/A YPH STUB1 KO This paper N/A YPH PLKO-WT This paper N/A YPH shVCP This paper N/A YPH mito-keima Dr. Richard J. Youle N/A YPH mito-keima STUB1 KO This paper N/A YPH Halo-EV This paper N/A YPH Halo-STUB1-WT This paper N/A YPH Halo-STUB1-ΔTRP This paper N/A Experimental models: Organisms/strains C. elegans (N2) Dr. Hilde Nilsen N/A C. elegans (N2 n-sid-1OV ) Described previously 78 N/A Oligonucleotides ..

    Cell Fractionation:

    Article Title: De novo design of Ras isoform selective binders.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Ms anti-Erk Cell Signaling Technology (CST) Cat#9107 Rb anti-phospho-Erk CST Cat#9101 Ms anti-Akt CST Cat#2920 Rb anti-phospho-Akt (S473) CST Cat#9271 Rb anti-GAPDH CST Cat#5174 Ms anti-Vinculin Sigma-Aldrich Cat#V9131 Ms anti-Myc Tag CST Cat#2276 Ms anti-Flag Tag Sigma-Aldrich Cat#A8592 Rb anti-E cadherin Abcam Cat#ab40772 Ms anti-Giantin Abcam Cat#ab37266 Rb anti-pan Ras CST Cat#91054 Rb anti-GFP CST Cat#2555 Rb anti-Hsp90 CST Cat#4877 Rb anti-Caveolin-1 CST Cat#3267 Streptavidin, Alexa FluorTM 488 conjugate ThermoFisher Cat#S11223 anti-C-Myc Antibody (Chicken) - FITC Conjugated ICL Cat#CMYC-45F 680 RD anti-Ms LICOR Cat#26-68071 680 RD anti-Rb LICOR Cat#926-68070 800 CW anti-Ms LICOR Cat#926-32210 800 CW anti-Rb LICOR Cat#926-32211 AF488 anti-Ms Thermo Fisher Cat#A11029 AF568 anti-Rb Thermo Fisher Cat#A11036 AF488 anti-Rb Thermo Fisher Cat#A11034 AF750 anti-Ms Thermo Fisher Cat#A21037 Streptavidin, R-Phycoerythrin Conjugate (SAPE) Life Technologies Cat#S866 Rb anti-KRAS4A Millipore Sigma Cat#ABC1442 Ms anti-KRAS4B Sigma-Aldrich Cat#WH0003845M1 Rb anti-HRAS ProteinTech Cat#18295-1-AP Ms anti-NRAS SCBT Cat#SC-31 Bacterial and virus strains E. coli Lemo21(DE3) NEB Cat#C2528J Chemicals, peptides, and recombinant proteins Fugene HD Transfection Reagent Fugene Cat#E2311 Poly-D-Lysine MP Biomedical Cat#215017580 RIPA Buffer Thermo Fisher Cat#89901 PierceTM High Capacity Streptavidin Agarose Thermo Fisher Cat#20359 LipofectamineTM LTX Reagent with PLUSTM Reagent Thermo Fisher Cat#15338100 Turbofectin 8.0 Origene Cat#TF81001 Electroporation Buffer MaxCyte Cat#EPB-5 16% PFA Electron Microscopy Services Cat#15710 Trans-Blot Turbo Transfer Pack BioRad Cat#1704159 Pierce Protease Inhibitor Tablets Thermo Fisher Cat#A32963 PHEM 0.2M Electron Microscopy Services Cat#11165 (Continued on next page) e1 Cell Chemical Biology 33, 1–13.e1–e7, March 19, 2026 .. REAGENT or RESOURCE SOURCE IDENTIFIER Biotin Sigma-Aldrich Cat#B4501 0.25% Trypsin-EDTA Gibco Cat#25200072 Pageruler Prestained Ladder Thermo Fisher Cat#PI26620 SpectraTM Multicolor High Range Protein Ladder Thermo Fisher Cat#26625 Protein A Agarose Beads CST Cat#9863S Protein G Agarose Beads CST Cat#37478 Puromycin Tocris Cat#4089 Hygromycin Tocris Cat#4137 DPBS Gibco Cat#14190250 Doxycycline Tocris Cat#4090 Studier Induction Media Teknova Cat#3S8000 Kanamycin Millipore Sigma Cat#PHR1487 Ni-NTA resin Qiagen Cat#30250 Ultra-15 Centrifugal Filter Units Amicon Cat#UFC9100 Superdex 75 Increase 10/300 GL GE Healthcare Cat#29148721 EGF Thermo Fisher Cat#PHG0311 Polydiallyldimethylammonium Sigma-Aldrich Cat#409014 Talon cobalt affinity resin Takara Bio Cat#635653 Cytiva S200 Increase column Sigma-Aldrich Cat#GE28-9909-44 DAPI ThermoFisher Cat#62248 FluoroBrite DMEM Media GIBCO Cat#A1896701 FBS Sigma-Aldrich Cat#F2442 Pen-Strep Sigma-Aldrich Cat#P4333 RPMI 1640 GIBCO Cat#11875093 PEI Max PolyScience Cat#24765 Cell Fractionation Kit CST Cat#9038 FGTI-2734 MedChemExpress Cat#HY-128350 AC220 MedChemExpress Cat#HY-13001 AMG-510 Selleck Chem Cat#S8830 Deposited data Zenodo This Paper https://doi.org/10.5281/zenodo.18322184 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 HeLa ATCC Cat#CCL-2 H2228 Gift from R. Bayliss lab N/A KRas4A WT MEF NCI Cat#RPZ26187 KRas4B WT MEF NCI Cat#RPZ25854 HRas WT MEF NCI Cat#RP200024 NRas WT MEF NCI Cat#RPZ26379 MIA PaCa-2 ATCC Cat#CRL-1420 H358 ATCC Cat#CRL-5807 MOLM-13 Cells DSMZ Cat#ACC-554 H441 ATCC Cat#HTB-174 Rh36 Gift from DJ. .. Maly lab N/A RD ATCC Cat#CCL-136 H1299 Gift from R. Bayliss lab. N/A SW1573 ATCC Cat#CRL-2170 Experimental models: Organisms/strains S. cerevisiae EBY100 ATCC Cat#MYA-4941DQ (Continued on next page) Cell Chemical Biology 33, 1–13.e1–e7, March 19, 2026 e2

    Virus:

    Article Title: Signatures of omicron-like adaptation in early SARS-CoV-2 variants and chronic infection.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies fp.006 Bianchini et al.28 fp.007 Bianchini et al.28 Goat Anti-Human ACE2 primary antibody R&D Systems Cat#AF933; RRID:AB_355722 Donkey Anti-Goat IgG H&L secondary antibody Abcam #ab150131; RRID:AB_2732857 Anti-Human TMPRSS2 Alexa Fluor 488-conjugated antibody R&D Systems Cat#FAB10723G; RRID:AB_3645473 rabbit anti-SARS-CoV-2 Spike antibody Thermofisher Scientific Cat# PA1-41165; RRID:AB_1087210, LOT:WE3286564 mouse anti-HIV-1 p55/p24 BEI Resources Cat# ARP-3537; RRID:AB_3086785 mouse anti-Spike monoclonal GeneTex Cat# GTX632604; RRID:AB_2864418; clone 1A9 mouse anti-HA-tag Biolegend Cat# 901516; RRID:AB_2820200; clone 16B12 rabbit anti-p24 CFAR Cat#ARP432 mouse Anti-Alpha-Tubulin Sigma-Aldrich Cat#MABT205; RRID:AB_11204167; cloneDM1A Bacterial and virus strains XL10-Gold Ultracompetent Cells Agilent Cat#200314 Biological samples Human sera Chemicals, peptides, and recombinant proteins E64d Tocris Cat#4545 Camostat Sigma-Aldrich Cat#SML0057 Fugene HD Transfection Reagent Promega Cat#E2311 Fugene 6 Transfection Reagent Promega Cat#E2691 Cell lyisis buffer Cell Signaling Technology Cat#9803 Critical commercial assays Bright-Glo Promega Cat#E2650 QuikChange Lightning Agilent Cat#210518 QuantiTect SYBR Green PCR Kit Qiagen Cat#204143 Clarity Western ECL Substrate Bio-Rad Cat#1705061 Amersham ECL Prime Cytivia Cat#RPN2232 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 HEK293T-GFP11 Leo James N/A Vero-GFP1-10 Leo James N/A CaLu-3 Paul Lehner N/A HeLa-ACE2 James Voss N/A A549-ACE2/TMPRSS2 Massimo Palmarini N/A Caco-2 ATCC HTB-37 Experimental models: Organisms/strains Human serum samples from SARS-CoV-2 AdV vaccine recipients Collected at NIHR BioResource Center, Cambridge Oligonucleotides SARS-CoV-2_Spike_P812S_FWD:GCCCG ATCCTAGCAAGAGCAGCAAGCGGAGC This paper NA (Continued on next page) Cell Reports 44, 116135, August 26, 2025 15 ..

    Transfection:

    Article Title: Signatures of omicron-like adaptation in early SARS-CoV-2 variants and chronic infection.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies fp.006 Bianchini et al.28 fp.007 Bianchini et al.28 Goat Anti-Human ACE2 primary antibody R&D Systems Cat#AF933; RRID:AB_355722 Donkey Anti-Goat IgG H&L secondary antibody Abcam #ab150131; RRID:AB_2732857 Anti-Human TMPRSS2 Alexa Fluor 488-conjugated antibody R&D Systems Cat#FAB10723G; RRID:AB_3645473 rabbit anti-SARS-CoV-2 Spike antibody Thermofisher Scientific Cat# PA1-41165; RRID:AB_1087210, LOT:WE3286564 mouse anti-HIV-1 p55/p24 BEI Resources Cat# ARP-3537; RRID:AB_3086785 mouse anti-Spike monoclonal GeneTex Cat# GTX632604; RRID:AB_2864418; clone 1A9 mouse anti-HA-tag Biolegend Cat# 901516; RRID:AB_2820200; clone 16B12 rabbit anti-p24 CFAR Cat#ARP432 mouse Anti-Alpha-Tubulin Sigma-Aldrich Cat#MABT205; RRID:AB_11204167; cloneDM1A Bacterial and virus strains XL10-Gold Ultracompetent Cells Agilent Cat#200314 Biological samples Human sera Chemicals, peptides, and recombinant proteins E64d Tocris Cat#4545 Camostat Sigma-Aldrich Cat#SML0057 Fugene HD Transfection Reagent Promega Cat#E2311 Fugene 6 Transfection Reagent Promega Cat#E2691 Cell lyisis buffer Cell Signaling Technology Cat#9803 Critical commercial assays Bright-Glo Promega Cat#E2650 QuikChange Lightning Agilent Cat#210518 QuantiTect SYBR Green PCR Kit Qiagen Cat#204143 Clarity Western ECL Substrate Bio-Rad Cat#1705061 Amersham ECL Prime Cytivia Cat#RPN2232 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 HEK293T-GFP11 Leo James N/A Vero-GFP1-10 Leo James N/A CaLu-3 Paul Lehner N/A HeLa-ACE2 James Voss N/A A549-ACE2/TMPRSS2 Massimo Palmarini N/A Caco-2 ATCC HTB-37 Experimental models: Organisms/strains Human serum samples from SARS-CoV-2 AdV vaccine recipients Collected at NIHR BioResource Center, Cambridge Oligonucleotides SARS-CoV-2_Spike_P812S_FWD:GCCCG ATCCTAGCAAGAGCAGCAAGCGGAGC This paper NA (Continued on next page) Cell Reports 44, 116135, August 26, 2025 15 ..

    Polymerase Chain Reaction:

    Article Title: Signatures of omicron-like adaptation in early SARS-CoV-2 variants and chronic infection.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies fp.006 Bianchini et al.28 fp.007 Bianchini et al.28 Goat Anti-Human ACE2 primary antibody R&D Systems Cat#AF933; RRID:AB_355722 Donkey Anti-Goat IgG H&L secondary antibody Abcam #ab150131; RRID:AB_2732857 Anti-Human TMPRSS2 Alexa Fluor 488-conjugated antibody R&D Systems Cat#FAB10723G; RRID:AB_3645473 rabbit anti-SARS-CoV-2 Spike antibody Thermofisher Scientific Cat# PA1-41165; RRID:AB_1087210, LOT:WE3286564 mouse anti-HIV-1 p55/p24 BEI Resources Cat# ARP-3537; RRID:AB_3086785 mouse anti-Spike monoclonal GeneTex Cat# GTX632604; RRID:AB_2864418; clone 1A9 mouse anti-HA-tag Biolegend Cat# 901516; RRID:AB_2820200; clone 16B12 rabbit anti-p24 CFAR Cat#ARP432 mouse Anti-Alpha-Tubulin Sigma-Aldrich Cat#MABT205; RRID:AB_11204167; cloneDM1A Bacterial and virus strains XL10-Gold Ultracompetent Cells Agilent Cat#200314 Biological samples Human sera Chemicals, peptides, and recombinant proteins E64d Tocris Cat#4545 Camostat Sigma-Aldrich Cat#SML0057 Fugene HD Transfection Reagent Promega Cat#E2311 Fugene 6 Transfection Reagent Promega Cat#E2691 Cell lyisis buffer Cell Signaling Technology Cat#9803 Critical commercial assays Bright-Glo Promega Cat#E2650 QuikChange Lightning Agilent Cat#210518 QuantiTect SYBR Green PCR Kit Qiagen Cat#204143 Clarity Western ECL Substrate Bio-Rad Cat#1705061 Amersham ECL Prime Cytivia Cat#RPN2232 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 HEK293T-GFP11 Leo James N/A Vero-GFP1-10 Leo James N/A CaLu-3 Paul Lehner N/A HeLa-ACE2 James Voss N/A A549-ACE2/TMPRSS2 Massimo Palmarini N/A Caco-2 ATCC HTB-37 Experimental models: Organisms/strains Human serum samples from SARS-CoV-2 AdV vaccine recipients Collected at NIHR BioResource Center, Cambridge Oligonucleotides SARS-CoV-2_Spike_P812S_FWD:GCCCG ATCCTAGCAAGAGCAGCAAGCGGAGC This paper NA (Continued on next page) Cell Reports 44, 116135, August 26, 2025 15 ..

    Western Blot:

    Article Title: Signatures of omicron-like adaptation in early SARS-CoV-2 variants and chronic infection.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies fp.006 Bianchini et al.28 fp.007 Bianchini et al.28 Goat Anti-Human ACE2 primary antibody R&D Systems Cat#AF933; RRID:AB_355722 Donkey Anti-Goat IgG H&L secondary antibody Abcam #ab150131; RRID:AB_2732857 Anti-Human TMPRSS2 Alexa Fluor 488-conjugated antibody R&D Systems Cat#FAB10723G; RRID:AB_3645473 rabbit anti-SARS-CoV-2 Spike antibody Thermofisher Scientific Cat# PA1-41165; RRID:AB_1087210, LOT:WE3286564 mouse anti-HIV-1 p55/p24 BEI Resources Cat# ARP-3537; RRID:AB_3086785 mouse anti-Spike monoclonal GeneTex Cat# GTX632604; RRID:AB_2864418; clone 1A9 mouse anti-HA-tag Biolegend Cat# 901516; RRID:AB_2820200; clone 16B12 rabbit anti-p24 CFAR Cat#ARP432 mouse Anti-Alpha-Tubulin Sigma-Aldrich Cat#MABT205; RRID:AB_11204167; cloneDM1A Bacterial and virus strains XL10-Gold Ultracompetent Cells Agilent Cat#200314 Biological samples Human sera Chemicals, peptides, and recombinant proteins E64d Tocris Cat#4545 Camostat Sigma-Aldrich Cat#SML0057 Fugene HD Transfection Reagent Promega Cat#E2311 Fugene 6 Transfection Reagent Promega Cat#E2691 Cell lyisis buffer Cell Signaling Technology Cat#9803 Critical commercial assays Bright-Glo Promega Cat#E2650 QuikChange Lightning Agilent Cat#210518 QuantiTect SYBR Green PCR Kit Qiagen Cat#204143 Clarity Western ECL Substrate Bio-Rad Cat#1705061 Amersham ECL Prime Cytivia Cat#RPN2232 Experimental models: Cell lines HEK293T ATCC CatCRL-3216 HEK293T-GFP11 Leo James N/A Vero-GFP1-10 Leo James N/A CaLu-3 Paul Lehner N/A HeLa-ACE2 James Voss N/A A549-ACE2/TMPRSS2 Massimo Palmarini N/A Caco-2 ATCC HTB-37 Experimental models: Organisms/strains Human serum samples from SARS-CoV-2 AdV vaccine recipients Collected at NIHR BioResource Center, Cambridge Oligonucleotides SARS-CoV-2_Spike_P812S_FWD:GCCCG ATCCTAGCAAGAGCAGCAAGCGGAGC This paper NA (Continued on next page) Cell Reports 44, 116135, August 26, 2025 15 ..



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