Recombinant:Article Title: Protocol for generating megakaryocytes from patient induced pluripotent stem cells for disease modeling and compound screening.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-human CD34 antibody (PE); 1:50 BioLegend CAT#343505, RRID: AB_1732033 Anti-human CD41 antibody (BV-421); 1:50 BioLegend CAT#303729, RRID: AB_2629626 Anti-human CD41/CD61 antibody (FITC); 1:50 Miltenyi Biotec CAT#130-124-887, RRID: AB_2819707 Anti-human CD42b antibody (APC); 1:50 BioLegend CAT#303912, RRID: AB_2113770 Anti-human CD45 antibody (APC-vio 770); 1:50 Miltenyi Biotec CAT#130-110-773, RRID: AB_2905022 Anti-human CD61 antibody (FITC); 1:50 BioLegend CAT#336403, RRID: AB_1227581 Anti-human CD117 antibody (FITC); 1:100 Invitrogen CAT#11-1178-42, RRID: AB_2572472 Anti-human CD235a antibody (PE); 1:50 Miltenyi Biotec CAT#130-120-613, RRID: AB_2801768 Anti-human CD61 microbeads Miltenyi Biotec CAT#130-051-101 Chemicals, peptides, and recombinant proteins Accutase PAN CAT#P10-21500 BMP-4 Miltenyi Biotec CAT#130-111-165 BSA detoxified (20%) Panzenbö ck et al. 1998 6 N/A β-Mercaptoethanol Gibco CAT#31350-010 CEPT cocktail Tocris CAT#7991 Chemically defined lipid concentrates Gibco CAT#11905031 CHIR99021 Tocris CAT#4423/10 Collagenase IV Gibco CAT17104-019 Distilled water (AmpurwaTM) Fresenius Kabi CAT#PZN 10333429 DMSO Sigma-Aldrich CAT#D8418 DMEM, high glucose Gibco CAT#41965-039 DPBS (Ca 2+ /Mg 2+ free) Gibco CAT#14190-094 EDTA Gibco CAT#15575-038 FCS Gibco CAT#1SB016 FGF2/bFGF Peprotech CAT#100-18B Gelatin Sigma CAT#G1890 GlutaMAX Gibco CAT#35050-038 Ham’s F12 medium Gibco CAT#11765-054 Human albumin (Albutein) Grifols CAT#PZN 10408498 Human TruStain FcXTM BioLegend CAT#422301 (Continued on next page) 6 STAR Protocols 7, 104393, March 20, 2026 ..
Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Article Title: Distinct immune landscapes between murine and human periodontitis
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Pacific Blue-F4/80 Monoclonal Antibody Biolegend Cat #123123; RRID:AB_893487 FITC-CD3E Monoclonal Antibody Biolegend Cat #152303; RRID:AB_2632666 PE-CD79A Monoclonal Antibody Biolegend Cat #133103; RRID:AB_1595633 APC-eFluor780-CD11B Monoclonal Antibody Thermofisher Cat #47-0112-80; RRID:AB_1603195 PE-Cy7-CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 APC-LY6G Monoclonal Antibody Thermofisher Cat #17-9668-82; RRID:AB_2573307 CD19 Monoclonal Antibody Thermofisher Cat #14-0194-82; RRID:AB_2637171 CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 Mannose Receptor(CD206) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1702-04; RRID:AB_2893392 CD68 Monoclonal Antibody Abcam Cat #ab303565; RRID:AB_3075482 CD14 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1610-85; RRID:AB_3069971 CD27 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET7107-73; RRID:AB_3070782 Syndecan 1 (CD138) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1703-42; RRID:AB_3070399 IgD Recombinant Rabbit Monoclonal Antibody Huabio Cat #HA722433; RRID: AB_3718570 CCR2 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1611-65; RRID:AB_3070044 MPO Monoclonal Antibody Abcam Cat #ab208670; RRID:AB_2864724 Bacterial and virus strains Porphyromonas gingivalis ATCC 33277 ATCC ATCC® 33277 TM Biological samples Human gingival biopsies West China Hospital of Stomatology see STAR Methods Biopsy Collection section Chemicals, peptides, and recombinant proteins DNase I Sigma Cat #DN25-1G Collagenase II Worthington Biochemical Corp. Cat #LS004176 Collagenase IV GIBCO Cat #17104-019 Critical commercial assays Qdot605-Zombie Yellow kit Biolegend Cat #423103 TNF-α ELISA kits Jonln Cat #JL10484 IL-6 ELISA kits NeoBioScience Cat #EMC004 Deposited data Single-cell RNA sequencing data This study GSA: CRA021219 Single-cell RNA sequencing data Williams et al., 2021 GEO: GSE164241 Single-cell RNA sequencing data Chen et al., 2022 GEO: GSE171213 Experimental models: Organisms/strains Mouse: C57BL/6J Beijing Vital River Laboratory Animal Technology Co., Ltd Nifdc Software and algorithms Cell Ranger 3.0.1 10X Genomics https://www.10xgenomics.com/ Seurat 4.1.0 Seurat https://github.com/satijalab/seurat/ (Continued on next page) e1 iScience 28, 114073, December 19, 2025 ..
Article Title: Serotonin 2A receptor attenuates psoriatic inflammation by suppressing IL-23 secretion in monocyte-derived Langerhans cells
Article Snippet: .. Chemicals, peptides, and recombinant proteins DOI hydrochloride Merck Cat# D101 Imiquimod Enzo Cat# ALX-420-039-M100 Aldara Cream (5% Imiquimod) iNova Pharmaceuticals N/A Recombinant mouse GranulocyteMacrophage Colony Stimulating Factor PeproTech Cat# 315-03 Recombinant mouse Transforming Growth Factor-b Biolegend Cat# 763104 Recombinant mouse IL-34 Biolegend Cat# 577604 Recombinant human GranulocyteMacrophage Colony Stimulating Factor PeproTech Cat# 30003100UG Recombinant human Transforming Growth Factor-b Biolegend Cat# 781802 Recombinant human IL-34 Biolegend Cat# 577902 EVP 4593 MCE Cat# HY-13812 Serotonin hydrochloride Merck Cat# H9523-25MG Fluoxetine hydrochloride Merck Cat# 343290 Diphtheria Toxin Sigma-Aldrich Cat# D0564 RNase Inhibitor Takara Cat# 2313B Halt protease inhibitor Thermo Scientific Cat# 78430 TritonX-100 Invitrogen Cat# 12090015 Dispase II Thermo Scientific Cat# 17105041 Collagenase IV Gibco Cat# 17104019 DNase I Bio Basic Cat# DD0649 RPMI 1640 Gibco Cat# 11875093 TRIzol Invitrogen Cat# 15596026 Penicillin/Streptomycin Thermo Scientific Cat# 15140122 DAB Roche Cat# 11718096001 Hematoxylin Sigma Cat# H3136 Fluoromount Aqueous mounting medium Sigma Cat# F4680 PMA Merck Cat# P1585 Ionomycin BioGems Cat# 5608212 GolgiStop BD Cat# 554724 Table S4. ..
Article Title: The transcription factor Helios restrains the anti-tumor capacity of CD8 + T cells.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER PerCP-Cy5.5 anti-human CD8a (clone OKT8) Tonbo Biosciences Cat#65–0086; RRID:AB_2621883 AF488 anti-human CD8a (clone AMC908) Thermo Fisher Scientific Cat#53-0008-82; RRID:AB_2574413 PE-Cy7 anti-human PD-1 (clone EH12.2H7) Biolegend Cat#329918; RRID:AB_2159324 AF488 anti-human PD-1 (clone EH12.2H7) Biolegend Cat#329936; RRID:AB_2563594 PE anti-mouse/human TCF1 (clone S33-966) BD Biosciences Cat#564217; RRID:AB_2687845 APC anti-human TIM3 (clone F38-2E2) Thermo Fisher Scientific Cat#17-3109-42; RRID:AB_1963622 Anti-human CD4 (polyclonal) R&D Cat#FAB8165G; RRID:AB_2728839 Anti-human Helios (clone 736423) R&D Cat#MAB73091; RRID:AB_10972618 Anti-human FOXP3 (clone PCH101) Thermo Fisher Scientific Cat#14-4776-82; RRID:AB_467554 Anti-human TOX (polyclonal) Thermo Fisher Scientific Cat#PA5-30328; RRID:AB_2547802 Anti-human IFN-gamma (clone 25718) R&D Cat#MAB285; RRID:AB_2123306 Anti-human Granzyme B (polyclonal) R&D Cat#AF2906; RRID:AB_622003 Anti-human Ki-67 (clone SolA15) Thermo Fisher Scientific Cat#14-5698-82; RRID:AB_10854564 AF488 anti-mouse IgG (polyclonal) Jackson Immuno Research Cat#115-545-003; RRID: AB_2338840 AF594 anti-rabbit IgG (polyclonal) Jackson Immuno Research Cat#111-585-003; RRID: AB_2338059 AF594 anti-mouse IgG (polyclonal) Jackson Immuno Research Cat#115-585-003; RRID: AB_2338871 AF647 anti-rat IgG (polyclonal) Jackson Immuno Research Cat#112-605-003; RRID: AB_2338393 AF647 anti-goat IgG (polyclonal) Jackson Immuno Research Cat#205-605-108; RRID: AB_2339076 Biological samples Paraffin-embedded tissue samples Department of Pathology, Instituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico N/A Fresh tissues of colorectal tumors Department of Surgery, Instituto Nacional de Ciencias Médicas y Nutrición Salvador Zubirán, Mexico N/A Chemicals, peptides, and recombinant proteins RPMI-1640 Merck Cat#R6504 DMEM Gibco Cat#10313-21 Fetal Bovine Serum Gibco Cat#16000-044 L-Glutamine Gibco Cat#G3126 HEPES 1M Gibco Cat#15630′080 Penicillin-Streptomycin Solution (100X) Gibco Cat#15140-122 Sodium Pyruvate (100mM) Gibco Cat#11360-070 DNaseI Roche Cat#10104159001 Collagenase IV Gibco Cat17104019 PMA Sigma Cat#P1585 Ionomycin Sigma Cat#I0634 SIINFEKL Genescript Cat#RP10611 G4 peptide (SIIGFEKL) Genescript Cat#RP20398 human IL2 Recombinant Protein Prepotech Cat#200-02 Alt-RTM S.p. .. Cas9 Nuclease V3 IDT Cat#1081058 Blasticidin S HCl Invitrogen Cat#R21001 ALV2 MedChemExpress Cat#HY-137206 BNTX maleate Abcam Cat#AB146142 KF 38789 Tocris Bioscience Cat#2748 SUN-B 8155 Tocris Bioscience Cat#2550 Adapalene Merck Cat#A7486 Ghost Dye Red 780 Tonbo Biosciences Cat#13-0865 Ghost Dye Red 710 Tonbo Biosciences Cat#13-0871 (Continued on next page) Cell Reports 44, 116680, December 23, 2025 17
Membrane:Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Clinical Proteomics:Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Purification:Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Derivative Assay:Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Luciferase:Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Article Title: Transfer learning reveals sequence determinants of the quantitative response to transcription factor dosage.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-V5 Abcam Cat# ab27671; RRID:AB_471093 Chemicals, peptides, and recombinant proteins dTAGV-1 Tocris Cat# 6914 mTeSR Stem Cell Technologies Cat# 85850 Matrigel Growth Factor Reduced (GFR) Basement Membrane Matrix Corning Cat# 356231 ReLeSR Stem Cell Technologies Cat# 05872 Collagenase IV GIBCO Cat# 17104019 DMEM/F12 1:1 medium, with L-glutamine; without HEPES GE Healthcare Cat# SH30271.FS Neurobasal Medium Thermo Fisher Scientific Cat# 21103049 Gem21 NeuroPlex Supplement With Vitamin A Gemini Bio-Products Cat# 400-160 N2 NeuroPlex Supplement Gemini Bio-Products Cat# 400-163 Antibiotic-Antimycotic (100X) GIBCO Cat# 15240062 GlutaMAX Supplement (100X) Life Technologies Cat# 35050061 Recombinant Human FGF-basic (154 a.a.) PeproTech Cat# 100-18B Animal-Free Recombinant Human EGF PeproTech Cat# AF-100-15 Bovine Insulin Powder Gemini Cat# 700-112P Human Plasma Fibronectin Purified Protein MilliporeSigma Cat# FC01010MG Accutase Sigma-Aldrich Cat# A6964-100ML Bovine Serum Albumin (BSA), Fraction V— Serum Replacement Grade Gemini Bio-Products Cat# 700-104P Recombinant Human/Murine/Rat BMP-2 (E.coli derived) PeproTech Cat# 120-02 CHIR-99021 (CT99021) HCl Selleck Chemicals Cat# S2924 DMEM/High glucose with L-glutamine, sodium pyruvate Cytiva (formerly GE Healthcare) Cat# SH30243.01 Critical commercial assays Dual-Glo Luciferase Assay System Promega Cat# E2940 TRIzol Reagent Invitrogen Cat# 15596018 FuGENE 6 Promega Cat# E2691 AMPure XP Beckman Coulter Cat# A63881 Qubit dsDNA HS Assay Kit Invitrogen Cat# Q32854 Deposited data ATAC-seq This paper GEO: GSE267008 Processed ATAC-seq, trained deep learning models This paper Zenodo: https://doi.org/10.5281/zenodo. .. 14633030 Experimental models: Cell lines Human: Female H9 human embryonic stem cells (hESCs) (wildtype) WiCell WA09; RRID: CVCL_9773 SOX9-tagged H9 hESCs Naqvi et al.11 N/A TWIST1-tagged H9 hESCs Kim et al.14 N/A Recombinant DNA Plasmid: pGL3_SFRP1 This paper Addgene: 232357 (Continued on next page) e1 Cell Genomics 5, 100780, March 12, 2025
Virus:Article Title: Distinct immune landscapes between murine and human periodontitis
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Pacific Blue-F4/80 Monoclonal Antibody Biolegend Cat #123123; RRID:AB_893487 FITC-CD3E Monoclonal Antibody Biolegend Cat #152303; RRID:AB_2632666 PE-CD79A Monoclonal Antibody Biolegend Cat #133103; RRID:AB_1595633 APC-eFluor780-CD11B Monoclonal Antibody Thermofisher Cat #47-0112-80; RRID:AB_1603195 PE-Cy7-CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 APC-LY6G Monoclonal Antibody Thermofisher Cat #17-9668-82; RRID:AB_2573307 CD19 Monoclonal Antibody Thermofisher Cat #14-0194-82; RRID:AB_2637171 CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 Mannose Receptor(CD206) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1702-04; RRID:AB_2893392 CD68 Monoclonal Antibody Abcam Cat #ab303565; RRID:AB_3075482 CD14 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1610-85; RRID:AB_3069971 CD27 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET7107-73; RRID:AB_3070782 Syndecan 1 (CD138) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1703-42; RRID:AB_3070399 IgD Recombinant Rabbit Monoclonal Antibody Huabio Cat #HA722433; RRID: AB_3718570 CCR2 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1611-65; RRID:AB_3070044 MPO Monoclonal Antibody Abcam Cat #ab208670; RRID:AB_2864724 Bacterial and virus strains Porphyromonas gingivalis ATCC 33277 ATCC ATCC® 33277 TM Biological samples Human gingival biopsies West China Hospital of Stomatology see STAR Methods Biopsy Collection section Chemicals, peptides, and recombinant proteins DNase I Sigma Cat #DN25-1G Collagenase II Worthington Biochemical Corp. Cat #LS004176 Collagenase IV GIBCO Cat #17104-019 Critical commercial assays Qdot605-Zombie Yellow kit Biolegend Cat #423103 TNF-α ELISA kits Jonln Cat #JL10484 IL-6 ELISA kits NeoBioScience Cat #EMC004 Deposited data Single-cell RNA sequencing data This study GSA: CRA021219 Single-cell RNA sequencing data Williams et al., 2021 GEO: GSE164241 Single-cell RNA sequencing data Chen et al., 2022 GEO: GSE171213 Experimental models: Organisms/strains Mouse: C57BL/6J Beijing Vital River Laboratory Animal Technology Co., Ltd Nifdc Software and algorithms Cell Ranger 3.0.1 10X Genomics https://www.10xgenomics.com/ Seurat 4.1.0 Seurat https://github.com/satijalab/seurat/ (Continued on next page) e1 iScience 28, 114073, December 19, 2025 ..
Enzyme-linked Immunosorbent Assay:Article Title: Distinct immune landscapes between murine and human periodontitis
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Pacific Blue-F4/80 Monoclonal Antibody Biolegend Cat #123123; RRID:AB_893487 FITC-CD3E Monoclonal Antibody Biolegend Cat #152303; RRID:AB_2632666 PE-CD79A Monoclonal Antibody Biolegend Cat #133103; RRID:AB_1595633 APC-eFluor780-CD11B Monoclonal Antibody Thermofisher Cat #47-0112-80; RRID:AB_1603195 PE-Cy7-CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 APC-LY6G Monoclonal Antibody Thermofisher Cat #17-9668-82; RRID:AB_2573307 CD19 Monoclonal Antibody Thermofisher Cat #14-0194-82; RRID:AB_2637171 CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 Mannose Receptor(CD206) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1702-04; RRID:AB_2893392 CD68 Monoclonal Antibody Abcam Cat #ab303565; RRID:AB_3075482 CD14 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1610-85; RRID:AB_3069971 CD27 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET7107-73; RRID:AB_3070782 Syndecan 1 (CD138) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1703-42; RRID:AB_3070399 IgD Recombinant Rabbit Monoclonal Antibody Huabio Cat #HA722433; RRID: AB_3718570 CCR2 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1611-65; RRID:AB_3070044 MPO Monoclonal Antibody Abcam Cat #ab208670; RRID:AB_2864724 Bacterial and virus strains Porphyromonas gingivalis ATCC 33277 ATCC ATCC® 33277 TM Biological samples Human gingival biopsies West China Hospital of Stomatology see STAR Methods Biopsy Collection section Chemicals, peptides, and recombinant proteins DNase I Sigma Cat #DN25-1G Collagenase II Worthington Biochemical Corp. Cat #LS004176 Collagenase IV GIBCO Cat #17104-019 Critical commercial assays Qdot605-Zombie Yellow kit Biolegend Cat #423103 TNF-α ELISA kits Jonln Cat #JL10484 IL-6 ELISA kits NeoBioScience Cat #EMC004 Deposited data Single-cell RNA sequencing data This study GSA: CRA021219 Single-cell RNA sequencing data Williams et al., 2021 GEO: GSE164241 Single-cell RNA sequencing data Chen et al., 2022 GEO: GSE171213 Experimental models: Organisms/strains Mouse: C57BL/6J Beijing Vital River Laboratory Animal Technology Co., Ltd Nifdc Software and algorithms Cell Ranger 3.0.1 10X Genomics https://www.10xgenomics.com/ Seurat 4.1.0 Seurat https://github.com/satijalab/seurat/ (Continued on next page) e1 iScience 28, 114073, December 19, 2025 ..
Single Cell:Article Title: Distinct immune landscapes between murine and human periodontitis
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Pacific Blue-F4/80 Monoclonal Antibody Biolegend Cat #123123; RRID:AB_893487 FITC-CD3E Monoclonal Antibody Biolegend Cat #152303; RRID:AB_2632666 PE-CD79A Monoclonal Antibody Biolegend Cat #133103; RRID:AB_1595633 APC-eFluor780-CD11B Monoclonal Antibody Thermofisher Cat #47-0112-80; RRID:AB_1603195 PE-Cy7-CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 APC-LY6G Monoclonal Antibody Thermofisher Cat #17-9668-82; RRID:AB_2573307 CD19 Monoclonal Antibody Thermofisher Cat #14-0194-82; RRID:AB_2637171 CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 Mannose Receptor(CD206) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1702-04; RRID:AB_2893392 CD68 Monoclonal Antibody Abcam Cat #ab303565; RRID:AB_3075482 CD14 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1610-85; RRID:AB_3069971 CD27 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET7107-73; RRID:AB_3070782 Syndecan 1 (CD138) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1703-42; RRID:AB_3070399 IgD Recombinant Rabbit Monoclonal Antibody Huabio Cat #HA722433; RRID: AB_3718570 CCR2 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1611-65; RRID:AB_3070044 MPO Monoclonal Antibody Abcam Cat #ab208670; RRID:AB_2864724 Bacterial and virus strains Porphyromonas gingivalis ATCC 33277 ATCC ATCC® 33277 TM Biological samples Human gingival biopsies West China Hospital of Stomatology see STAR Methods Biopsy Collection section Chemicals, peptides, and recombinant proteins DNase I Sigma Cat #DN25-1G Collagenase II Worthington Biochemical Corp. Cat #LS004176 Collagenase IV GIBCO Cat #17104-019 Critical commercial assays Qdot605-Zombie Yellow kit Biolegend Cat #423103 TNF-α ELISA kits Jonln Cat #JL10484 IL-6 ELISA kits NeoBioScience Cat #EMC004 Deposited data Single-cell RNA sequencing data This study GSA: CRA021219 Single-cell RNA sequencing data Williams et al., 2021 GEO: GSE164241 Single-cell RNA sequencing data Chen et al., 2022 GEO: GSE171213 Experimental models: Organisms/strains Mouse: C57BL/6J Beijing Vital River Laboratory Animal Technology Co., Ltd Nifdc Software and algorithms Cell Ranger 3.0.1 10X Genomics https://www.10xgenomics.com/ Seurat 4.1.0 Seurat https://github.com/satijalab/seurat/ (Continued on next page) e1 iScience 28, 114073, December 19, 2025 ..
RNA Sequencing:Article Title: Distinct immune landscapes between murine and human periodontitis
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Pacific Blue-F4/80 Monoclonal Antibody Biolegend Cat #123123; RRID:AB_893487 FITC-CD3E Monoclonal Antibody Biolegend Cat #152303; RRID:AB_2632666 PE-CD79A Monoclonal Antibody Biolegend Cat #133103; RRID:AB_1595633 APC-eFluor780-CD11B Monoclonal Antibody Thermofisher Cat #47-0112-80; RRID:AB_1603195 PE-Cy7-CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 APC-LY6G Monoclonal Antibody Thermofisher Cat #17-9668-82; RRID:AB_2573307 CD19 Monoclonal Antibody Thermofisher Cat #14-0194-82; RRID:AB_2637171 CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 Mannose Receptor(CD206) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1702-04; RRID:AB_2893392 CD68 Monoclonal Antibody Abcam Cat #ab303565; RRID:AB_3075482 CD14 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1610-85; RRID:AB_3069971 CD27 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET7107-73; RRID:AB_3070782 Syndecan 1 (CD138) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1703-42; RRID:AB_3070399 IgD Recombinant Rabbit Monoclonal Antibody Huabio Cat #HA722433; RRID: AB_3718570 CCR2 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1611-65; RRID:AB_3070044 MPO Monoclonal Antibody Abcam Cat #ab208670; RRID:AB_2864724 Bacterial and virus strains Porphyromonas gingivalis ATCC 33277 ATCC ATCC® 33277 TM Biological samples Human gingival biopsies West China Hospital of Stomatology see STAR Methods Biopsy Collection section Chemicals, peptides, and recombinant proteins DNase I Sigma Cat #DN25-1G Collagenase II Worthington Biochemical Corp. Cat #LS004176 Collagenase IV GIBCO Cat #17104-019 Critical commercial assays Qdot605-Zombie Yellow kit Biolegend Cat #423103 TNF-α ELISA kits Jonln Cat #JL10484 IL-6 ELISA kits NeoBioScience Cat #EMC004 Deposited data Single-cell RNA sequencing data This study GSA: CRA021219 Single-cell RNA sequencing data Williams et al., 2021 GEO: GSE164241 Single-cell RNA sequencing data Chen et al., 2022 GEO: GSE171213 Experimental models: Organisms/strains Mouse: C57BL/6J Beijing Vital River Laboratory Animal Technology Co., Ltd Nifdc Software and algorithms Cell Ranger 3.0.1 10X Genomics https://www.10xgenomics.com/ Seurat 4.1.0 Seurat https://github.com/satijalab/seurat/ (Continued on next page) e1 iScience 28, 114073, December 19, 2025 ..
Software:Article Title: Distinct immune landscapes between murine and human periodontitis
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Pacific Blue-F4/80 Monoclonal Antibody Biolegend Cat #123123; RRID:AB_893487 FITC-CD3E Monoclonal Antibody Biolegend Cat #152303; RRID:AB_2632666 PE-CD79A Monoclonal Antibody Biolegend Cat #133103; RRID:AB_1595633 APC-eFluor780-CD11B Monoclonal Antibody Thermofisher Cat #47-0112-80; RRID:AB_1603195 PE-Cy7-CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 APC-LY6G Monoclonal Antibody Thermofisher Cat #17-9668-82; RRID:AB_2573307 CD19 Monoclonal Antibody Thermofisher Cat #14-0194-82; RRID:AB_2637171 CD45 Monoclonal Antibody Thermofisher Cat #25-0451-81; RRID:AB_2716950 Mannose Receptor(CD206) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1702-04; RRID:AB_2893392 CD68 Monoclonal Antibody Abcam Cat #ab303565; RRID:AB_3075482 CD14 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1610-85; RRID:AB_3069971 CD27 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET7107-73; RRID:AB_3070782 Syndecan 1 (CD138) Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1703-42; RRID:AB_3070399 IgD Recombinant Rabbit Monoclonal Antibody Huabio Cat #HA722433; RRID: AB_3718570 CCR2 Recombinant Rabbit Monoclonal Antibody Huabio Cat #ET1611-65; RRID:AB_3070044 MPO Monoclonal Antibody Abcam Cat #ab208670; RRID:AB_2864724 Bacterial and virus strains Porphyromonas gingivalis ATCC 33277 ATCC ATCC® 33277 TM Biological samples Human gingival biopsies West China Hospital of Stomatology see STAR Methods Biopsy Collection section Chemicals, peptides, and recombinant proteins DNase I Sigma Cat #DN25-1G Collagenase II Worthington Biochemical Corp. Cat #LS004176 Collagenase IV GIBCO Cat #17104-019 Critical commercial assays Qdot605-Zombie Yellow kit Biolegend Cat #423103 TNF-α ELISA kits Jonln Cat #JL10484 IL-6 ELISA kits NeoBioScience Cat #EMC004 Deposited data Single-cell RNA sequencing data This study GSA: CRA021219 Single-cell RNA sequencing data Williams et al., 2021 GEO: GSE164241 Single-cell RNA sequencing data Chen et al., 2022 GEO: GSE171213 Experimental models: Organisms/strains Mouse: C57BL/6J Beijing Vital River Laboratory Animal Technology Co., Ltd Nifdc Software and algorithms Cell Ranger 3.0.1 10X Genomics https://www.10xgenomics.com/ Seurat 4.1.0 Seurat https://github.com/satijalab/seurat/ (Continued on next page) e1 iScience 28, 114073, December 19, 2025 ..
Cream:Article Title: Serotonin 2A receptor attenuates psoriatic inflammation by suppressing IL-23 secretion in monocyte-derived Langerhans cells
Article Snippet: .. Chemicals, peptides, and recombinant proteins DOI hydrochloride Merck Cat# D101 Imiquimod Enzo Cat# ALX-420-039-M100 Aldara Cream (5% Imiquimod) iNova Pharmaceuticals N/A Recombinant mouse GranulocyteMacrophage Colony Stimulating Factor PeproTech Cat# 315-03 Recombinant mouse Transforming Growth Factor-b Biolegend Cat# 763104 Recombinant mouse IL-34 Biolegend Cat# 577604 Recombinant human GranulocyteMacrophage Colony Stimulating Factor PeproTech Cat# 30003100UG Recombinant human Transforming Growth Factor-b Biolegend Cat# 781802 Recombinant human IL-34 Biolegend Cat# 577902 EVP 4593 MCE Cat# HY-13812 Serotonin hydrochloride Merck Cat# H9523-25MG Fluoxetine hydrochloride Merck Cat# 343290 Diphtheria Toxin Sigma-Aldrich Cat# D0564 RNase Inhibitor Takara Cat# 2313B Halt protease inhibitor Thermo Scientific Cat# 78430 TritonX-100 Invitrogen Cat# 12090015 Dispase II Thermo Scientific Cat# 17105041 Collagenase IV Gibco Cat# 17104019 DNase I Bio Basic Cat# DD0649 RPMI 1640 Gibco Cat# 11875093 TRIzol Invitrogen Cat# 15596026 Penicillin/Streptomycin Thermo Scientific Cat# 15140122 DAB Roche Cat# 11718096001 Hematoxylin Sigma Cat# H3136 Fluoromount Aqueous mounting medium Sigma Cat# F4680 PMA Merck Cat# P1585 Ionomycin BioGems Cat# 5608212 GolgiStop BD Cat# 554724 Table S4. ..
Protease Inhibitor:Article Title: Serotonin 2A receptor attenuates psoriatic inflammation by suppressing IL-23 secretion in monocyte-derived Langerhans cells
Article Snippet: .. Chemicals, peptides, and recombinant proteins DOI hydrochloride Merck Cat# D101 Imiquimod Enzo Cat# ALX-420-039-M100 Aldara Cream (5% Imiquimod) iNova Pharmaceuticals N/A Recombinant mouse GranulocyteMacrophage Colony Stimulating Factor PeproTech Cat# 315-03 Recombinant mouse Transforming Growth Factor-b Biolegend Cat# 763104 Recombinant mouse IL-34 Biolegend Cat# 577604 Recombinant human GranulocyteMacrophage Colony Stimulating Factor PeproTech Cat# 30003100UG Recombinant human Transforming Growth Factor-b Biolegend Cat# 781802 Recombinant human IL-34 Biolegend Cat# 577902 EVP 4593 MCE Cat# HY-13812 Serotonin hydrochloride Merck Cat# H9523-25MG Fluoxetine hydrochloride Merck Cat# 343290 Diphtheria Toxin Sigma-Aldrich Cat# D0564 RNase Inhibitor Takara Cat# 2313B Halt protease inhibitor Thermo Scientific Cat# 78430 TritonX-100 Invitrogen Cat# 12090015 Dispase II Thermo Scientific Cat# 17105041 Collagenase IV Gibco Cat# 17104019 DNase I Bio Basic Cat# DD0649 RPMI 1640 Gibco Cat# 11875093 TRIzol Invitrogen Cat# 15596026 Penicillin/Streptomycin Thermo Scientific Cat# 15140122 DAB Roche Cat# 11718096001 Hematoxylin Sigma Cat# H3136 Fluoromount Aqueous mounting medium Sigma Cat# F4680 PMA Merck Cat# P1585 Ionomycin BioGems Cat# 5608212 GolgiStop BD Cat# 554724 Table S4. ..
Staining:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Magnetic Beads:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
cDNA Synthesis:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Co-Immunoprecipitation Assay:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Bicinchoninic Acid Protein Assay:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Cloning:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Ligation:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Mutagenesis:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Sample Prep:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
In Situ:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Proximity Ligation Assay:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Polyacrylamide Gel Electrophoresis:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
Chromatin Immunoprecipitation:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
DNA Library Preparation:Article Title: NAT10 promotes cancer metastasis by modulating p300/CBP activity through chromatin-associated tRNA.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Fibronectin from bovine plasma Millipore-Sigma Cat# F1141 Ibidi μ slide 4 well Ibidi Inc. Cat# 80426 Ibidi μ slide 8 well Ibidi Inc. Cat# 80826 15-well angiogenesis polymer coverslip Ibidi Inc. Cat# 81506 Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Dynabead Protein G Invitrogen Cat# 10004D NuPAGE LDS sample buffer Invitrogen Cat# NP0008 NuPAGE Sample Reducing Agent Thermo Fisher Scientific Cat# NP0009 NuPAGE 3-8% Tris-Acetate protein gel Thermo Fisher Scientific Cat# EA0375BOX NuPAGE 12% Bis-Tris protein gel Thermo Fisher Scientific Cat# NP0342BOX Immobilon-P PVDF Membrane Millipore Cat# IPVH07850 Nytran SuPerCharge (SPC) Blotting Membranes Cytiva Cat# 10416294 Amersham Hybond-N+ membrane Cytiva Cat# RPN2020B KOD Hot Start DNA Polymerase Millipore Cat# 71086 Gateway LR Clonase II Enzyme mix Thermo Fisher Scientific Cat# 11791020 T4 DNA ligase New England Biolab Cat# M0202S X-tremeGENE 9 DNA transfection reagent Roche Cat# 06365809001 Nanojuice Transfection Reagent Millipore-Sigma Cat# 71902 dTAG-13 Tocris Bioscience Cat# 6605 SuperSignal West Femto Maximum Sensitivity Substrate Thermo Fisher Scientific Cat# 34096 Amersham ECL Prime Western Blotting Detection Reagent Cytiva Cat# RPN2236 A-485 SelleckChem Cat# S8740 dCBP-1 (PROTAC degrader for p300/CBP MedChemExpress Cat# HY-134582 ML-60218 MedChemExpress Cat# HY-122122 DNA Polymerase I, Large (Klenow) Fragment New England Biolab Cat# M0210L TURBO DNase Thermo Fisher Scientific Cat# AM2238 Recombinant p300 full length Active Motif Cat# 81158 Recombinant p300 catalytic subunit Active Motif Cat# 81093 Recombinant CBP catalytic subunit Active Motif Cat# 31590 Recombinant KAT7 Active Motif Cat# 31489 Recombinant NAT10 Origene Technologies Cat# TP307082 Recombinant NAT10 Active Motif Cat# 81376 Recombinant polynucleosome (H3.3) Active Motif Cat# 31468 Recombinant H3.1 Active Motif Cat# 31294 Recombinant H3.2 Active Motif Cat# 81237 Recombinant H3.3 Active Motif Cat# 31295 Recombinant H4, His-tagged Active Motif Cat# 31493 5X HAT buffer Millipore-Sigma Cat# 20-148 Acetyl CoA Millipore-Sigma Cat# A2056 Butyric acid Millipore-Sigma Cat# B103500 Pierce anti-DYKDDDDK (FLAG) Magnetic Agarose beads Thermo Fisher Scientific Cat# A36797 Prolong Glass Antifade Mounting Medium Thermo Fisher Scientific Cat# P36980 Slow Fade Diamond Antifade Mountant Thermo Fisher Scientific Cat# S36967 DAPI Millipore-Sigma Cat# D9542 (Continued on next page) ll OPEN ACCESS Article e3 Molecular Cell 85, 1–19.e1–e18, December 18, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Novex TBE-Urea Gels, 6% Thermo Fisher Scientific Cat# EC68652BOX TBE (10X), RNase-free Thermo Fisher Scientific Cat# AM9865 0.2 kPa softwell 6 Matrigen Cat# SW6-EC-0.2 12 kPa softwell 6 Matrigen Cat# SW6-EC-12 DNase Roche Cat# 10104159001 Collagenase IV Gibco Cat# 17104-019 Brilliant Stain Buffer BD Biosciences Cat# 563794 CountBright Absolute Counting Beads Thermo Fisher Scientific Cat# C36950 Lambda protein phosphatase New England Biolabs Cat# P0753S 25% Gluteraldehyde solution Millipore-Sigma Cat# G5882 Proteinase K Thermo Fisher Scientific Cat# AM2546 Formamide Millipore-Sigma Cat# F7503 Superase-In Thermo Fisher Scientific Cat# AM2696 C-1 magnetic beads Invitrogen Cat# 65002 PMSF Millipore-Sigma Cat# P7626 20x SSC Invitrogen Cat# 15557044 RNase H New England Biolabs Cat# M0297S RNase A Thermo Fisher Scientific Cat# EN0531 Dextran sulfate Millipore-Sigma Cat# D8906 Yeast tRNAs Roche Cat# 10109525001 Ribonucleoside Vanadyl Complex New England Biolabs Cat# S1402S Critical commercial assays iScript cDNA Synthesis Kit Bio-Rad Cat# 1708890 TruSeq Stranded mRNA Library Prep Kit Illumina Cat# RS- 122-2201 Nuclear Complex Co-IP Kit Active Motif Cat# 54001 Pierce BCA Protein Assay Kit Thermo Fisher Scientific Cat# 23227 pENTR/D-TOPO Cloning Kit Thermo Fisher Scientific Cat# K240020 Quick Ligation Kit New England Biolab Cat# M2200 NEBuilder HiFi DNA Assembly master mix New England Biolab Cat# E2621L QuickChange II Site Directed Mutagenesis Kit Agilent Cat# 200523 EasyPep MS Sample Prep Kit Thermo Fisher Scientific Cat# A40006 PTMScan HS Acetyl-Lysine Motif (Ac-K) Kit Cell Signaling Technology Cat# 46784 Duolink In Situ Orange starter kit mouse/ rabbit Millipore-Sigma Cat# DUO92102 NaveniFlex Cell Red PLA kit Navinci Diagnostics Cat# 60025 HighYield T7 RNA Synthesis Kit with ac4CTP Jena Bioscience Cat# RNT-111-L ZR Small RNA PAGE Recovery Kit Zymo Research Cat# R1070 Click-iT Plus OPP Alexa Fluor 488 Protein Synthesis Assay Kit Thermo Fisher Scientific Cat# C10456 miRNeasy Tissue/Cell Advanced Mini Kit Qiagen Cat# 217684 RNeasy mini kit Qiagen Cat# 74104 RNA ChIP-IT kit Active Motif Cat# 53204 ChIP-IT Express Enzymatic Chromatin Immunoprecipitation Kit Active Motif Cat# 53009 ATAC-seq kit Active Motif Cat# 53150 SWIFT Accel-NGS 2s plus DNA Library Preparation Kit Swift Bioscience Cat# 21024 (Continued on next page) ll OPEN ACCESSArticle Molecular Cell 85, 1–19.e1–e18, December 18, 2025 e4 .. REAGENT or RESOURCE SOURCE IDENTIFIER xGen 2S DNA Library Prep kit Integrated DNA Technologies Cat# 10009877 Illumina Stranded Total RNA-seq Library Prep Kit with RiboZero Plus Illumina Cat# 20040525 NucleoBond Xtra BAC kit Takara Bio Cat# 740436.25 Chromatide Alexa Fluor 488-5-dUTP kit Thermo Fisher Science Cat# C11397 LIVE/DEAD Fixable Dead Cell Stain kit Thermo Fisher Scientific Cat# L34960 Experimental model: Cell lines Mouse cell line: 4T1 Lalage Wakefield, NCI RRID: CVCL_C8PZ Mouse cell line: 6DT1 Lalage Wakefield, NCI RRID: CVCL_0125 Human cell line: 293FT Thermo Fisher Scientific Cat# R70007, RRID: CVCL_6911 Experimental model: Organisms/strains Mouse: BALB/cJ Jackson Laboratory Cat# 000651; RRID: IMSR_JAX:000651 Mouse: FVB/NJ Jackson Laboratory Cat# 001800; RRID: IMSR_JAX:001800 Mouse: C57BL/6-NAT10 H537A Jordan Meier, NCI RRID: N/A Mouse: MMTV-PyMT (FVB/N-Tg(MMTVPyVT)634Mul/J Jackson Laboratory Cat# 002374; RRID: IMSR_JAX:002374 Recombinant DNA Plasmid: pDest-659-pol2-FLAG-NAT10 This paper N/A Plasmid: pDest-659-pol2-Myc-NAT10 This paper N/A Plasmid: pDest-659-pol2-FLAGNAT10-H537A This paper N/A Plasmid: 3X-FLAG-BRD4 short form (SF) This paper N/A Plasmid: 3X-FLAG-BRD long form (LF) This paper N/A Plasmid: pCW57-MCS1-P2A-MCS2 Addgene Cat# 80921 Plasmid: pCW57-MCS1-P2A-MCS2NUP210-FlAG This paper N/A Plasmid: psPAX2 Addgene Cat# 12260 Plasmid: pMD2.G Addgene Cat# 12259 Plasmid: pLKO.1-sh-Nat10-E8 Horizon Discovery TRCN0000184285 Plasmid: pLKO.1-sh-Nat10-E10 Horizon Discovery TRCN0000184551 Plasmid: pLKO.1-sh-Nat10-E12 Horizon Discovery TRCN0000179570 Plasmid: pLKO.1-Blast Addgene Cat# 26655 Plasmid: pLKO.1-Blast-Scramble control Addgene Cat# 26701 Plasmid: pLKO.1-Blast-tRNA-Ser-TGA This paper N/A Plasmid: pLKO.1-Blast-tRNA-Leu-CAG This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B4 This paper N/A Plasmid: Tet-pLKO.1-Puro-sh-hNAT10-B8 This paper N/A Plasmid: Tet-pLKO.1-puro-scramble Addgene Cat# 47541 Plasmid: AIO-GFP Addgene Cat# 74119 Plasmid: pX330A-1×2 Addgene Cat# 58766 Plasmid: pX330A-1x2-cNAT10 This paper N/A Plasmid: pX330S-2-PITCh Addgene Cat# 63670 Plasmid: pX330A-1x2-cNAT10/PITCh This paper N/A Plasmid: pCRIS-PITChv2-dTAGPuro (BRD4) Addgene Cat# 91796 BAC clone: Myc superenhancer (RP23203H19) Thermo Fisher Scientific Cat# RP23-203H19 (Continued on next page) ll OPEN ACCESS Article e5 Molecular Cell 85, 1–19.e1–e18, December 18, 2025
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