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d4010 deposited data medip seq  (Zymo Research)


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    Zymo Research d4010 deposited data medip seq
    D4010 Deposited Data Medip Seq, supplied by Zymo Research, used in various techniques. Bioz Stars score: 96/100, based on 1365 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/d4010+deposited+data+medip+seq/Genomic+DNA+Clean+%26+Concentrat/pm32234487-232-130-127
    Average 96 stars, based on 1365 article reviews
    d4010 deposited data medip seq - by Bioz Stars, 2026-09
    96/100 stars

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    Related Articles

    Membrane:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).

    Extraction:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).

    Polymerase Chain Reaction:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).

    DNA Sequencing:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).

    ChIP-qPCR:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).

    Methylated DNA Immunoprecipitation Sequencing:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).

    Software:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).

    Magnetic Cell Separation:

    Article Title: TET-Mediated Hypermethylation Primes SDH-Deficient Cells for HIF2α-Driven Mesenchymal Transition.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies anti-H3K27me3 Diagenode Cat# C15410069, RRID: AB_2814977 anti-5mC Calbiochem Cat# NA81-50UG, RRID: AB_213180 anti-5hmC Active Motif Cat# 39769, RRID: AB_10013602 anti-ssDNA Millipore Cat# MAB3299, RRID: AB_94795 biotinylated secondary antibody VECTOR Cat# BA-1000, RRID: AB_2313606 HRP-conjugated mouse secondary antibodies Biovision Cat# 6402-05, RRID: AB_657968 HRP-conjugated rabbit secondary antibodies Biorad Cat# 170-6515, RRID: AB_11125142 anti-actin Sigma-Aldrich Cat# A5316, RRID: AB_476743 anti-TET1 Millipore Cat# 09-872, RRID: AB_10806199 anti-TET2 Proteintech Cat# 21207-1-AP, RRID: AB_10734584 anti-TET3 Active motif Cat#61744 clone 23B9; RRID: AB_2793753 anti-HIF2a Abcam Cat# ab8365, RRID: AB_306519 anti-HIF2a Abcam Cat# ab109616, RRID: AB_11156727 Anti-H3K27me3 Active Motif Cat# 39156, RRID: AB_2636821 anti-H3-Cterminal Active Motif Cat# 39451, RRID: AB_2793242 Anti-Hif2a antibody R&D Systems Cat# AF2997, RRID: AB_2098218 Donkey anti-rabbit secondary antibody, Alexa Fluor 594 Invitrogen Cat# A-21207, RRID: AB_141637 Bacterial and Virus Strains pLKO.1 empty vector Sigma-Aldrich Tet1 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000341849 Tet2 shRNA pLKO.1-puro vector Sigma-Aldrich TRCN0000250894 HIF1a pLKO.1-puro vector Sigma-Aldrich TRCN0000232220 HIF2a pLKO.1-puro vector Sigma-Aldrich TRCN000082304 shSCR pLKO.1-puro vector Sigma-Aldrich SHC016 Biological Samples HUMAN: Frozen paraganglioma samples COMETE Collection N/A Chemicals, Peptides, and Recombinant Proteins DMEM (Dulbecco Modified Eagle Medium) GIBCO 31966-021 Fetal bovine serum GIBCO 10270 Penicillin/Streptomycin GIBCO 15140-122 UNC1999 Sigma-Aldrich SML0778 UNC2400 SGC https://www.thesgc.org/chemical-probes GSK343 Sigma-Aldrich SML0766 DMSO Sigma-Aldrich D4540 trypsin-EDTA 0.05% GIBCO 25300-054 puromycin Invivogen CAS 58-58-2 polybrene Sigma-Aldrich TR-1003-G proteinase K Sigma-Aldrich 1245680500 PBS GIBCO 10010-015 QiaAmp DNA mini kit, QIAGEN 51306 DNA coating buffer Thermofisher 17250 Kathon Supelco 5-00127 (Continued on next page) Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Tween 20 Sigma-Aldrich P1379 Streptavidin HRP BD Bioscience 554066 RIPA buffer Abcam Ab156034 NuPAGE Novex 4–16% Bis-Tris gradient gel Invitrogen NP0335BOX PVDF membrane Millipore IPVH00010 nitrocellulose membrane Amersham 10600001 H2SO4 VWR 20700.298 trichloroacetic acid Sigma-Aldrich T6399 acetone VWR E646-1L formaldehyde VWR 11699404 triton buffer Sigma-Aldrich T8787 Phalloidin-TRITC toxin Sigma-Aldrich #P1951 vectashield with Dapi VECTOR H-1200 Critical Commercial Assays AllPrep extraction kit QIAGEN 80204 NEXTflex PCR-Free DNA Sequencing kit Diagenode ref. C02010021 MagMeDIP kit Diagenode C02010021 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 RNeasy plus mini-kit QIAGEN 74134 iScript enzyme BioRad 1708891 TrueMethyl 24 kit Cambridge Epigenetix N/A SuperScript SybrGreen BioRad #1725151 iDeal ChIP-qPCR kit Diagenode #C01010180 GenElute Mammalian genomic DNA kit Sigma-Aldrich #G1N350 Genomic DNA Clean & Concentrator kit Zymo Research ref. D4010 Deposited Data MeDIP-seq, RRBS and oxRRBS data European Genome Phenome Archive EGA: EGAS00001004252 Experimental Models: Cell Lines MOUSE: imCC WT Letouzé et al., 2013 N/A MOUSE: imCC Sdhb / Letouzé et al., 2013 N/A Experimental Models: Organisms/Strains NMRI nude mice Janvier Lab N/A Oligonucleotides Oligonucleotides This study Table S3 Software and Algorithms bowtie2 Langmead and Salzberg, 2012 http://bowtie-bio.sourceforge.net/bowtie2/ index.shtml Picard Tools Broadinstitute http://picard.sourceforge.net SAMtools Li et al., 2009 http://samtools.sourceforge.net MACS Zhang et al., 2008 https://github.com/taoliu/MACS bedtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/ GAT Heger et al., 2013 https://gat.readthedocs.io/en/latest/ Bioconductor DiffBind package Stark and Brown, 2011 https://bioconductor.org/packages/release/ bioc/html/DiffBind.html Bedmap tool from the BEDOPS suite Neph et al., 2012 https://bedops.readthedocs.io/en/latest/ Bioconductor DESeq package Anders and Huber, 2010 https://bioconductor.org/packages/release/ bioc/html/DESeq.html (Continued on next page) e2 Cell Reports 30, 4551–4566.e1–e7, March 31, 2020 .. Further information and requests should be directed to andwill be fulfilled by the LeadContact, Judith Favier (judith.favier@inserm.fr).



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