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cell lines rat fibroblasts rat2 atcc crl 1764  (ATCC)


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    ATCC cell lines rat fibroblasts rat2 atcc crl 1764
    Cell Lines Rat Fibroblasts Rat2 Atcc Crl 1764, supplied by ATCC, used in various techniques. Bioz Stars score: 95/100, based on 312 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/cell+lines+rat+fibroblasts+rat2+atcc+crl+1764/Rat2/10__1016_slash_j__isci__2025__114040-263-222-227
    Average 95 stars, based on 312 article reviews
    cell lines rat fibroblasts rat2 atcc crl 1764 - by Bioz Stars, 2026-10
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    Virus:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Plasmid Preparation:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Recombinant:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Membrane:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Transfection:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Isolation:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    SYBR Green Assay:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Digital PCR:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Chromatin Immunoprecipitation:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    RNA Sequencing:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Hi-C:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Gene Expression:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.

    Software:

    Article Title: Recruitment of transcriptional effectors by Cas9 creates cis regulatory elements and demonstrates distance-dependent transcriptional regulation
    Article Snippet: 573 574 575 576 Jo urn al Pr e-p roo f 577 STAR★METHODS 578 KEY RESOURCES TABLE 579 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti Cardiac Troponin T antibody Abcam EPR20266, ab209813, RRID: AB_2783837 Rabbit Polyclonal anti MYBPC3 antibody Abcam ab262964, RRID: AB_2921232 Rabbit polyclonal anti-Histone H3 (acetyl K27) antibody Abcam ab4729, RRID: AB_303402 Rabbit polyclonal anti-Histone H3 (mono methyl K4) antibody Abcam ab8895, RRID: AB_306847 Bacterial and virus strains pAd/CMV/V5-DESTTM Gateway vector ThermoFisher V49320 pAD-CMV-dCas9-KRAB This paper pAD-CMV-dCas9-GNT This paper Chemicals, peptides, and recombinant proteins CHIR99021 Stemgent 04-0004, CAS: 252917- 06-9 IWR-1 Sigma-Aldrich I0161, CAS: 1127442-82-3 Percoll Sigma-Aldrich GE17-0891-02 Cultrex Basement Membrane Extract, PathClear R&D systems 3432-005-01 LipofectamineTM RNAiMAX Transfection Reagent ThermoFisher 13778075 Polyjet transfection reagent SignaGen laboratories SL100688 Critical commercial assays Neonatal Cardiomyocyte Isolation System Worthington 9002-07-7, CAS: 9035-81-1 EnGen sgRNA Synthesis Kit New England Biolabs E3322 Monarch RNA Cleanup Kit New England Biolabs T2040L Fast SYBR Green Master Mix ThermoFisher AB4385612 QuantStudio Absolute Q MAP16 Plate Kit ThermoFisher A52865 Absolute QTM DNA Digital PCR Master Mix ThermoFisher A52490 MAGnify Chromatin Immunoprecipitation System ThermoFisher 492024 Deposited data ATAC-seq data This paper and GolanLagziel ea al.26 GSE102532 ChIP-seq data This paper and GolanLagziel ea al.26 GSE102530 RNA-seq data This paper and GolanLagziel ea al.26 GSE102531 Hi-C data This paper GSE197736 Jo ur al Pr e-p roo f Experimental models: Cell lines Rat fibroblasts (Rat2) ATCC CRL-1764 Human embryonic kidney fibroblasts (HEK293) ATCC CRL-1573 Human induced pluripotent stem cells Lior Gepstein lab. Shinnawi et al.67 Oligonucleotides TaqMan Gene Expression rat Cox6a2 ThermoFisher Rn00563091_g1 TaqMan Gene Expression rat Myh7 ThermoFisher Rn00568328_m1 TaqMan Gene Expression rat Gapdh ThermoFisher Rn01775763_g1 Recombinant DNA SP-dCas9 with VP64-p65-Rta (VPR) plasmid Chavez et al.18 Addgene # 63798 pLV hU6-sgRNA hUbC-dCas9-KRAB-T2a-Puro Thakore et al.26 Addgene # 71236 pcDNA-dCas9-p300 Core Hilton et al.22 Addgene # 61357 Software and algorithms CRISPOR Concordet et al.68 https://crispor.gi.ucsc.edu/ Bowtie2 Langmead B et al.69 https://bowtiebio.sourceforge.net/bowti e2/index.shtml Cooler Abdennur et al.70 https://github.com/mirnyla b/cooler.



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