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3214 experimental models  (ATCC)


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    ATCC 3214 experimental models
    3214 Experimental Models, supplied by ATCC, used in various techniques. Bioz Stars score: 97/100, based on 389 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/3214+experimental+models/Phoenix-ECO/pm41105511-204-63-62
    Average 97 stars, based on 389 article reviews
    3214 experimental models - by Bioz Stars, 2026-09
    97/100 stars

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    Related Articles

    RNA Sequencing:

    Article Title: Long noncoding RNA-dependent control of Myc transcriptional bursting.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Brd4 Abcam Cat#ab128874 pHH3 Cell Signaling Cat#9701S Myc, clone Y69 Abcam Cat#ab32072 Hsp90 Cell Signaling Cat#4877S Alexa Fluor 488 AffiniPure Goat Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#111-545-003 Peroxidase AffiniPure Donkey Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#711-035-152 FITC-conjugated anti-BrdU antibody, clone B44 BD Biosciences Cat#347583 Bacterial and virus strains Adenoviral Cre (High Titer) University of Iowa, Viral Vector Core Facility N/A Stable Competent E.coli (High Efficiency) New England Biolabs Cat#C3040H Chemicals, peptides, and recombinant proteins 2-mercaptoethanol Gibco Cat#21985-023 Puromycin dihydrochloride Millipore Sigma Cat#P9620 MG132 Millipore Sigma Cat#M7449 Cycloheximide Millipore Sigma Cat#C4859 Hexadimethrine bromide (polybrene) Millipore Sigma Cat#107689 Formaldehyde, 16%, methanol-free ThermoFisher Scientific Cat#28908 1xPBS, RNAse-free ThermoFisher Scientific Cat#J62851AK Formamide ThermoFisher Scientific Cat#17899 Vectashield mounting media with DAPI Vector Laboratories Cat#H-1200 BSA, RNAse-free Jackson Immunoresearch Cat#001-000-162 Fast SYBR Green PCR Master Mix ThermoFisher Scientific Cat#4385614 GoTaq Green PCR Master Mix Promega Cat#M7123 BrdU Millipore Sigma Cat#B5002 Dual Endogenous Enzyme Block DAKO Cat#S-2003 Avidin/Biotin block Vector Laboratories Cat#SP-2001 CAS-Block Invitrogen Cat#008120 Stellaris® RNA FISH Hybridization Buffer LGC Biosciences Cat#SMF-HB1-10 Stellaris® RNA FISH Wash Buffer A LGC Biosciences Cat#SMF-WA1-60 Stellaris® RNA FISH Wash Buffer B LGC Biosciences Cat#SMF-WB1-20 Formaldehyde solution Millipore Sigma Cat#252549 Hematoxylin Solution, Gill No.2 Millipore Sigma Cat#GHS232 Critical commercial assays RNeasy Mini Kit Qiagen Cat#74106 RNAse-free DNase Set Qiagen Cat#79254 TissueRuptor II Qiagen Cat#9002755 High Capacity cDNA Reverse Transcription Kit ThermoFisher Scientific Cat#4368814 Pierce ECL Prime Western Blotting Substrate ThermoFisher Scientific Cat#32209 Vectastain Elite ABC Peroxidase Kit Vector Laboratories Cat#PK-6101 DAB Peroxidase (HRP) Substrate Kit Vector Laboratories Cat#SK-4100 (Continued on next page) Cell Reports 44, 116439, October 28, 2025 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq This paper GEO: GSE306107 ATAC-seq This paper GEO: GSE306101 Hi-C This paper GEO: GSE306102 Experimental models: Cell lines E13.5 MEFs Pvt1P/P and Pvt1+/+, littermate, primary This paper N/A E13.5 MEFs Pvt1P/P; p53+/+ and Pvt1P/P; p53-/-, littermate, primary This paper N/A PR MEFs, puromycin-sensitive: p53LSL/LSL; Rosa26-CreERT2 Olivero et al.23 N/A 293 ATCC Cat#CRL-1573 Phoenix ecotrophic ATCC CatCRL-3214 Experimental models: Organisms/strains Pvt1 PAS: B6-Pvt1P/P This paper N/A p53 null: B6.129S2-Trp53tm1Tyj/J Jackson Laboratories RRID: IMSR_JAX:002101 Kras-LA1: 129-Krastm1Tyj/J Generously provided by Dr. Jonathan Kurie, MD Anderson Cancer Center RRID: IMSR_JAX:002674 KP: B6.129-Krastm4Tyj Trp53tm1Brn/J Jackson Laboratories RRID:IMSR_JAX:032435 Oligonucleotides gRNAs sequences, see Table S5 This paper N/A Genotyping primers, see Table S5 This paper N/A qRT-PCR primers, see Table S5 This paper N/A Stellaris FISH Probes, Custom Assay with Quasar® 670 Dye, see Table S5 LGC Biosciences Cat#SMF-1065-5 Stellaris FISH Probes, Custom Assay with Quasar® 570 Dye, see Table S5 LGC Biosciences Cat#SMF-1063-5 Recombinant DNA pCMV-dR8.2 dvpr Addgene Cat#8455 pCMV-VSV-G Addgene Cat#8454 pLPC-E1A Dimitrova et al.34 N/A BRD1-gRNA Generously provided by Broad Institute N/A Software and algorithms Zen2.6 Pro software Zeiss N/A ImageJ FIJI N/A Prism8 GraphPad N/A STAR (2.7.11a) Dobin et al.35 N/A HTseq Anders et al.36 N/A DESeq2 Love et al.37 N/A clusterProfiler Yu et al.38 N/A Msigdbr (V2025.1.Hs) Liberzon et al.39 N/A ggplot2 Wickham et al.40 N/A deeptools (V3.5.2) Ramirez et al.41 N/A IGV (Integrative Genomics Viewer) Robinson et al.42 N/A MACS2 Zhang et al.43 N/A Bedtools Quinlan et al.44 N/A Juicer command tool (V1.6) Durand et al.45 N/A bwa aligner (V0.7.17) Li and Durbin46 N/A dcHiC command line tool Chakraborty et al.47 N/A Juicebox software Robinson et al.48 N/A multiHiCcompare Stansfield et al.49 N/A 16 Cell Reports 44, 116439, October 28, 2025 .. Pvt1 PAS (P) mice were generated using CRISPR/Cas9-mediated engineering in C57BL/6J blastocysts at Jackson Laboratory.

    Hi-C:

    Article Title: Long noncoding RNA-dependent control of Myc transcriptional bursting.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Brd4 Abcam Cat#ab128874 pHH3 Cell Signaling Cat#9701S Myc, clone Y69 Abcam Cat#ab32072 Hsp90 Cell Signaling Cat#4877S Alexa Fluor 488 AffiniPure Goat Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#111-545-003 Peroxidase AffiniPure Donkey Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#711-035-152 FITC-conjugated anti-BrdU antibody, clone B44 BD Biosciences Cat#347583 Bacterial and virus strains Adenoviral Cre (High Titer) University of Iowa, Viral Vector Core Facility N/A Stable Competent E.coli (High Efficiency) New England Biolabs Cat#C3040H Chemicals, peptides, and recombinant proteins 2-mercaptoethanol Gibco Cat#21985-023 Puromycin dihydrochloride Millipore Sigma Cat#P9620 MG132 Millipore Sigma Cat#M7449 Cycloheximide Millipore Sigma Cat#C4859 Hexadimethrine bromide (polybrene) Millipore Sigma Cat#107689 Formaldehyde, 16%, methanol-free ThermoFisher Scientific Cat#28908 1xPBS, RNAse-free ThermoFisher Scientific Cat#J62851AK Formamide ThermoFisher Scientific Cat#17899 Vectashield mounting media with DAPI Vector Laboratories Cat#H-1200 BSA, RNAse-free Jackson Immunoresearch Cat#001-000-162 Fast SYBR Green PCR Master Mix ThermoFisher Scientific Cat#4385614 GoTaq Green PCR Master Mix Promega Cat#M7123 BrdU Millipore Sigma Cat#B5002 Dual Endogenous Enzyme Block DAKO Cat#S-2003 Avidin/Biotin block Vector Laboratories Cat#SP-2001 CAS-Block Invitrogen Cat#008120 Stellaris® RNA FISH Hybridization Buffer LGC Biosciences Cat#SMF-HB1-10 Stellaris® RNA FISH Wash Buffer A LGC Biosciences Cat#SMF-WA1-60 Stellaris® RNA FISH Wash Buffer B LGC Biosciences Cat#SMF-WB1-20 Formaldehyde solution Millipore Sigma Cat#252549 Hematoxylin Solution, Gill No.2 Millipore Sigma Cat#GHS232 Critical commercial assays RNeasy Mini Kit Qiagen Cat#74106 RNAse-free DNase Set Qiagen Cat#79254 TissueRuptor II Qiagen Cat#9002755 High Capacity cDNA Reverse Transcription Kit ThermoFisher Scientific Cat#4368814 Pierce ECL Prime Western Blotting Substrate ThermoFisher Scientific Cat#32209 Vectastain Elite ABC Peroxidase Kit Vector Laboratories Cat#PK-6101 DAB Peroxidase (HRP) Substrate Kit Vector Laboratories Cat#SK-4100 (Continued on next page) Cell Reports 44, 116439, October 28, 2025 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq This paper GEO: GSE306107 ATAC-seq This paper GEO: GSE306101 Hi-C This paper GEO: GSE306102 Experimental models: Cell lines E13.5 MEFs Pvt1P/P and Pvt1+/+, littermate, primary This paper N/A E13.5 MEFs Pvt1P/P; p53+/+ and Pvt1P/P; p53-/-, littermate, primary This paper N/A PR MEFs, puromycin-sensitive: p53LSL/LSL; Rosa26-CreERT2 Olivero et al.23 N/A 293 ATCC Cat#CRL-1573 Phoenix ecotrophic ATCC CatCRL-3214 Experimental models: Organisms/strains Pvt1 PAS: B6-Pvt1P/P This paper N/A p53 null: B6.129S2-Trp53tm1Tyj/J Jackson Laboratories RRID: IMSR_JAX:002101 Kras-LA1: 129-Krastm1Tyj/J Generously provided by Dr. Jonathan Kurie, MD Anderson Cancer Center RRID: IMSR_JAX:002674 KP: B6.129-Krastm4Tyj Trp53tm1Brn/J Jackson Laboratories RRID:IMSR_JAX:032435 Oligonucleotides gRNAs sequences, see Table S5 This paper N/A Genotyping primers, see Table S5 This paper N/A qRT-PCR primers, see Table S5 This paper N/A Stellaris FISH Probes, Custom Assay with Quasar® 670 Dye, see Table S5 LGC Biosciences Cat#SMF-1065-5 Stellaris FISH Probes, Custom Assay with Quasar® 570 Dye, see Table S5 LGC Biosciences Cat#SMF-1063-5 Recombinant DNA pCMV-dR8.2 dvpr Addgene Cat#8455 pCMV-VSV-G Addgene Cat#8454 pLPC-E1A Dimitrova et al.34 N/A BRD1-gRNA Generously provided by Broad Institute N/A Software and algorithms Zen2.6 Pro software Zeiss N/A ImageJ FIJI N/A Prism8 GraphPad N/A STAR (2.7.11a) Dobin et al.35 N/A HTseq Anders et al.36 N/A DESeq2 Love et al.37 N/A clusterProfiler Yu et al.38 N/A Msigdbr (V2025.1.Hs) Liberzon et al.39 N/A ggplot2 Wickham et al.40 N/A deeptools (V3.5.2) Ramirez et al.41 N/A IGV (Integrative Genomics Viewer) Robinson et al.42 N/A MACS2 Zhang et al.43 N/A Bedtools Quinlan et al.44 N/A Juicer command tool (V1.6) Durand et al.45 N/A bwa aligner (V0.7.17) Li and Durbin46 N/A dcHiC command line tool Chakraborty et al.47 N/A Juicebox software Robinson et al.48 N/A multiHiCcompare Stansfield et al.49 N/A 16 Cell Reports 44, 116439, October 28, 2025 .. Pvt1 PAS (P) mice were generated using CRISPR/Cas9-mediated engineering in C57BL/6J blastocysts at Jackson Laboratory.

    Quantitative RT-PCR:

    Article Title: Long noncoding RNA-dependent control of Myc transcriptional bursting.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Brd4 Abcam Cat#ab128874 pHH3 Cell Signaling Cat#9701S Myc, clone Y69 Abcam Cat#ab32072 Hsp90 Cell Signaling Cat#4877S Alexa Fluor 488 AffiniPure Goat Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#111-545-003 Peroxidase AffiniPure Donkey Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#711-035-152 FITC-conjugated anti-BrdU antibody, clone B44 BD Biosciences Cat#347583 Bacterial and virus strains Adenoviral Cre (High Titer) University of Iowa, Viral Vector Core Facility N/A Stable Competent E.coli (High Efficiency) New England Biolabs Cat#C3040H Chemicals, peptides, and recombinant proteins 2-mercaptoethanol Gibco Cat#21985-023 Puromycin dihydrochloride Millipore Sigma Cat#P9620 MG132 Millipore Sigma Cat#M7449 Cycloheximide Millipore Sigma Cat#C4859 Hexadimethrine bromide (polybrene) Millipore Sigma Cat#107689 Formaldehyde, 16%, methanol-free ThermoFisher Scientific Cat#28908 1xPBS, RNAse-free ThermoFisher Scientific Cat#J62851AK Formamide ThermoFisher Scientific Cat#17899 Vectashield mounting media with DAPI Vector Laboratories Cat#H-1200 BSA, RNAse-free Jackson Immunoresearch Cat#001-000-162 Fast SYBR Green PCR Master Mix ThermoFisher Scientific Cat#4385614 GoTaq Green PCR Master Mix Promega Cat#M7123 BrdU Millipore Sigma Cat#B5002 Dual Endogenous Enzyme Block DAKO Cat#S-2003 Avidin/Biotin block Vector Laboratories Cat#SP-2001 CAS-Block Invitrogen Cat#008120 Stellaris® RNA FISH Hybridization Buffer LGC Biosciences Cat#SMF-HB1-10 Stellaris® RNA FISH Wash Buffer A LGC Biosciences Cat#SMF-WA1-60 Stellaris® RNA FISH Wash Buffer B LGC Biosciences Cat#SMF-WB1-20 Formaldehyde solution Millipore Sigma Cat#252549 Hematoxylin Solution, Gill No.2 Millipore Sigma Cat#GHS232 Critical commercial assays RNeasy Mini Kit Qiagen Cat#74106 RNAse-free DNase Set Qiagen Cat#79254 TissueRuptor II Qiagen Cat#9002755 High Capacity cDNA Reverse Transcription Kit ThermoFisher Scientific Cat#4368814 Pierce ECL Prime Western Blotting Substrate ThermoFisher Scientific Cat#32209 Vectastain Elite ABC Peroxidase Kit Vector Laboratories Cat#PK-6101 DAB Peroxidase (HRP) Substrate Kit Vector Laboratories Cat#SK-4100 (Continued on next page) Cell Reports 44, 116439, October 28, 2025 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq This paper GEO: GSE306107 ATAC-seq This paper GEO: GSE306101 Hi-C This paper GEO: GSE306102 Experimental models: Cell lines E13.5 MEFs Pvt1P/P and Pvt1+/+, littermate, primary This paper N/A E13.5 MEFs Pvt1P/P; p53+/+ and Pvt1P/P; p53-/-, littermate, primary This paper N/A PR MEFs, puromycin-sensitive: p53LSL/LSL; Rosa26-CreERT2 Olivero et al.23 N/A 293 ATCC Cat#CRL-1573 Phoenix ecotrophic ATCC CatCRL-3214 Experimental models: Organisms/strains Pvt1 PAS: B6-Pvt1P/P This paper N/A p53 null: B6.129S2-Trp53tm1Tyj/J Jackson Laboratories RRID: IMSR_JAX:002101 Kras-LA1: 129-Krastm1Tyj/J Generously provided by Dr. Jonathan Kurie, MD Anderson Cancer Center RRID: IMSR_JAX:002674 KP: B6.129-Krastm4Tyj Trp53tm1Brn/J Jackson Laboratories RRID:IMSR_JAX:032435 Oligonucleotides gRNAs sequences, see Table S5 This paper N/A Genotyping primers, see Table S5 This paper N/A qRT-PCR primers, see Table S5 This paper N/A Stellaris FISH Probes, Custom Assay with Quasar® 670 Dye, see Table S5 LGC Biosciences Cat#SMF-1065-5 Stellaris FISH Probes, Custom Assay with Quasar® 570 Dye, see Table S5 LGC Biosciences Cat#SMF-1063-5 Recombinant DNA pCMV-dR8.2 dvpr Addgene Cat#8455 pCMV-VSV-G Addgene Cat#8454 pLPC-E1A Dimitrova et al.34 N/A BRD1-gRNA Generously provided by Broad Institute N/A Software and algorithms Zen2.6 Pro software Zeiss N/A ImageJ FIJI N/A Prism8 GraphPad N/A STAR (2.7.11a) Dobin et al.35 N/A HTseq Anders et al.36 N/A DESeq2 Love et al.37 N/A clusterProfiler Yu et al.38 N/A Msigdbr (V2025.1.Hs) Liberzon et al.39 N/A ggplot2 Wickham et al.40 N/A deeptools (V3.5.2) Ramirez et al.41 N/A IGV (Integrative Genomics Viewer) Robinson et al.42 N/A MACS2 Zhang et al.43 N/A Bedtools Quinlan et al.44 N/A Juicer command tool (V1.6) Durand et al.45 N/A bwa aligner (V0.7.17) Li and Durbin46 N/A dcHiC command line tool Chakraborty et al.47 N/A Juicebox software Robinson et al.48 N/A multiHiCcompare Stansfield et al.49 N/A 16 Cell Reports 44, 116439, October 28, 2025 .. Pvt1 PAS (P) mice were generated using CRISPR/Cas9-mediated engineering in C57BL/6J blastocysts at Jackson Laboratory.

    Fluorescence In Situ Hybridization:

    Article Title: Long noncoding RNA-dependent control of Myc transcriptional bursting.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Brd4 Abcam Cat#ab128874 pHH3 Cell Signaling Cat#9701S Myc, clone Y69 Abcam Cat#ab32072 Hsp90 Cell Signaling Cat#4877S Alexa Fluor 488 AffiniPure Goat Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#111-545-003 Peroxidase AffiniPure Donkey Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#711-035-152 FITC-conjugated anti-BrdU antibody, clone B44 BD Biosciences Cat#347583 Bacterial and virus strains Adenoviral Cre (High Titer) University of Iowa, Viral Vector Core Facility N/A Stable Competent E.coli (High Efficiency) New England Biolabs Cat#C3040H Chemicals, peptides, and recombinant proteins 2-mercaptoethanol Gibco Cat#21985-023 Puromycin dihydrochloride Millipore Sigma Cat#P9620 MG132 Millipore Sigma Cat#M7449 Cycloheximide Millipore Sigma Cat#C4859 Hexadimethrine bromide (polybrene) Millipore Sigma Cat#107689 Formaldehyde, 16%, methanol-free ThermoFisher Scientific Cat#28908 1xPBS, RNAse-free ThermoFisher Scientific Cat#J62851AK Formamide ThermoFisher Scientific Cat#17899 Vectashield mounting media with DAPI Vector Laboratories Cat#H-1200 BSA, RNAse-free Jackson Immunoresearch Cat#001-000-162 Fast SYBR Green PCR Master Mix ThermoFisher Scientific Cat#4385614 GoTaq Green PCR Master Mix Promega Cat#M7123 BrdU Millipore Sigma Cat#B5002 Dual Endogenous Enzyme Block DAKO Cat#S-2003 Avidin/Biotin block Vector Laboratories Cat#SP-2001 CAS-Block Invitrogen Cat#008120 Stellaris® RNA FISH Hybridization Buffer LGC Biosciences Cat#SMF-HB1-10 Stellaris® RNA FISH Wash Buffer A LGC Biosciences Cat#SMF-WA1-60 Stellaris® RNA FISH Wash Buffer B LGC Biosciences Cat#SMF-WB1-20 Formaldehyde solution Millipore Sigma Cat#252549 Hematoxylin Solution, Gill No.2 Millipore Sigma Cat#GHS232 Critical commercial assays RNeasy Mini Kit Qiagen Cat#74106 RNAse-free DNase Set Qiagen Cat#79254 TissueRuptor II Qiagen Cat#9002755 High Capacity cDNA Reverse Transcription Kit ThermoFisher Scientific Cat#4368814 Pierce ECL Prime Western Blotting Substrate ThermoFisher Scientific Cat#32209 Vectastain Elite ABC Peroxidase Kit Vector Laboratories Cat#PK-6101 DAB Peroxidase (HRP) Substrate Kit Vector Laboratories Cat#SK-4100 (Continued on next page) Cell Reports 44, 116439, October 28, 2025 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq This paper GEO: GSE306107 ATAC-seq This paper GEO: GSE306101 Hi-C This paper GEO: GSE306102 Experimental models: Cell lines E13.5 MEFs Pvt1P/P and Pvt1+/+, littermate, primary This paper N/A E13.5 MEFs Pvt1P/P; p53+/+ and Pvt1P/P; p53-/-, littermate, primary This paper N/A PR MEFs, puromycin-sensitive: p53LSL/LSL; Rosa26-CreERT2 Olivero et al.23 N/A 293 ATCC Cat#CRL-1573 Phoenix ecotrophic ATCC CatCRL-3214 Experimental models: Organisms/strains Pvt1 PAS: B6-Pvt1P/P This paper N/A p53 null: B6.129S2-Trp53tm1Tyj/J Jackson Laboratories RRID: IMSR_JAX:002101 Kras-LA1: 129-Krastm1Tyj/J Generously provided by Dr. Jonathan Kurie, MD Anderson Cancer Center RRID: IMSR_JAX:002674 KP: B6.129-Krastm4Tyj Trp53tm1Brn/J Jackson Laboratories RRID:IMSR_JAX:032435 Oligonucleotides gRNAs sequences, see Table S5 This paper N/A Genotyping primers, see Table S5 This paper N/A qRT-PCR primers, see Table S5 This paper N/A Stellaris FISH Probes, Custom Assay with Quasar® 670 Dye, see Table S5 LGC Biosciences Cat#SMF-1065-5 Stellaris FISH Probes, Custom Assay with Quasar® 570 Dye, see Table S5 LGC Biosciences Cat#SMF-1063-5 Recombinant DNA pCMV-dR8.2 dvpr Addgene Cat#8455 pCMV-VSV-G Addgene Cat#8454 pLPC-E1A Dimitrova et al.34 N/A BRD1-gRNA Generously provided by Broad Institute N/A Software and algorithms Zen2.6 Pro software Zeiss N/A ImageJ FIJI N/A Prism8 GraphPad N/A STAR (2.7.11a) Dobin et al.35 N/A HTseq Anders et al.36 N/A DESeq2 Love et al.37 N/A clusterProfiler Yu et al.38 N/A Msigdbr (V2025.1.Hs) Liberzon et al.39 N/A ggplot2 Wickham et al.40 N/A deeptools (V3.5.2) Ramirez et al.41 N/A IGV (Integrative Genomics Viewer) Robinson et al.42 N/A MACS2 Zhang et al.43 N/A Bedtools Quinlan et al.44 N/A Juicer command tool (V1.6) Durand et al.45 N/A bwa aligner (V0.7.17) Li and Durbin46 N/A dcHiC command line tool Chakraborty et al.47 N/A Juicebox software Robinson et al.48 N/A multiHiCcompare Stansfield et al.49 N/A 16 Cell Reports 44, 116439, October 28, 2025 .. Pvt1 PAS (P) mice were generated using CRISPR/Cas9-mediated engineering in C57BL/6J blastocysts at Jackson Laboratory.

    Recombinant:

    Article Title: Long noncoding RNA-dependent control of Myc transcriptional bursting.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Brd4 Abcam Cat#ab128874 pHH3 Cell Signaling Cat#9701S Myc, clone Y69 Abcam Cat#ab32072 Hsp90 Cell Signaling Cat#4877S Alexa Fluor 488 AffiniPure Goat Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#111-545-003 Peroxidase AffiniPure Donkey Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#711-035-152 FITC-conjugated anti-BrdU antibody, clone B44 BD Biosciences Cat#347583 Bacterial and virus strains Adenoviral Cre (High Titer) University of Iowa, Viral Vector Core Facility N/A Stable Competent E.coli (High Efficiency) New England Biolabs Cat#C3040H Chemicals, peptides, and recombinant proteins 2-mercaptoethanol Gibco Cat#21985-023 Puromycin dihydrochloride Millipore Sigma Cat#P9620 MG132 Millipore Sigma Cat#M7449 Cycloheximide Millipore Sigma Cat#C4859 Hexadimethrine bromide (polybrene) Millipore Sigma Cat#107689 Formaldehyde, 16%, methanol-free ThermoFisher Scientific Cat#28908 1xPBS, RNAse-free ThermoFisher Scientific Cat#J62851AK Formamide ThermoFisher Scientific Cat#17899 Vectashield mounting media with DAPI Vector Laboratories Cat#H-1200 BSA, RNAse-free Jackson Immunoresearch Cat#001-000-162 Fast SYBR Green PCR Master Mix ThermoFisher Scientific Cat#4385614 GoTaq Green PCR Master Mix Promega Cat#M7123 BrdU Millipore Sigma Cat#B5002 Dual Endogenous Enzyme Block DAKO Cat#S-2003 Avidin/Biotin block Vector Laboratories Cat#SP-2001 CAS-Block Invitrogen Cat#008120 Stellaris® RNA FISH Hybridization Buffer LGC Biosciences Cat#SMF-HB1-10 Stellaris® RNA FISH Wash Buffer A LGC Biosciences Cat#SMF-WA1-60 Stellaris® RNA FISH Wash Buffer B LGC Biosciences Cat#SMF-WB1-20 Formaldehyde solution Millipore Sigma Cat#252549 Hematoxylin Solution, Gill No.2 Millipore Sigma Cat#GHS232 Critical commercial assays RNeasy Mini Kit Qiagen Cat#74106 RNAse-free DNase Set Qiagen Cat#79254 TissueRuptor II Qiagen Cat#9002755 High Capacity cDNA Reverse Transcription Kit ThermoFisher Scientific Cat#4368814 Pierce ECL Prime Western Blotting Substrate ThermoFisher Scientific Cat#32209 Vectastain Elite ABC Peroxidase Kit Vector Laboratories Cat#PK-6101 DAB Peroxidase (HRP) Substrate Kit Vector Laboratories Cat#SK-4100 (Continued on next page) Cell Reports 44, 116439, October 28, 2025 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq This paper GEO: GSE306107 ATAC-seq This paper GEO: GSE306101 Hi-C This paper GEO: GSE306102 Experimental models: Cell lines E13.5 MEFs Pvt1P/P and Pvt1+/+, littermate, primary This paper N/A E13.5 MEFs Pvt1P/P; p53+/+ and Pvt1P/P; p53-/-, littermate, primary This paper N/A PR MEFs, puromycin-sensitive: p53LSL/LSL; Rosa26-CreERT2 Olivero et al.23 N/A 293 ATCC Cat#CRL-1573 Phoenix ecotrophic ATCC CatCRL-3214 Experimental models: Organisms/strains Pvt1 PAS: B6-Pvt1P/P This paper N/A p53 null: B6.129S2-Trp53tm1Tyj/J Jackson Laboratories RRID: IMSR_JAX:002101 Kras-LA1: 129-Krastm1Tyj/J Generously provided by Dr. Jonathan Kurie, MD Anderson Cancer Center RRID: IMSR_JAX:002674 KP: B6.129-Krastm4Tyj Trp53tm1Brn/J Jackson Laboratories RRID:IMSR_JAX:032435 Oligonucleotides gRNAs sequences, see Table S5 This paper N/A Genotyping primers, see Table S5 This paper N/A qRT-PCR primers, see Table S5 This paper N/A Stellaris FISH Probes, Custom Assay with Quasar® 670 Dye, see Table S5 LGC Biosciences Cat#SMF-1065-5 Stellaris FISH Probes, Custom Assay with Quasar® 570 Dye, see Table S5 LGC Biosciences Cat#SMF-1063-5 Recombinant DNA pCMV-dR8.2 dvpr Addgene Cat#8455 pCMV-VSV-G Addgene Cat#8454 pLPC-E1A Dimitrova et al.34 N/A BRD1-gRNA Generously provided by Broad Institute N/A Software and algorithms Zen2.6 Pro software Zeiss N/A ImageJ FIJI N/A Prism8 GraphPad N/A STAR (2.7.11a) Dobin et al.35 N/A HTseq Anders et al.36 N/A DESeq2 Love et al.37 N/A clusterProfiler Yu et al.38 N/A Msigdbr (V2025.1.Hs) Liberzon et al.39 N/A ggplot2 Wickham et al.40 N/A deeptools (V3.5.2) Ramirez et al.41 N/A IGV (Integrative Genomics Viewer) Robinson et al.42 N/A MACS2 Zhang et al.43 N/A Bedtools Quinlan et al.44 N/A Juicer command tool (V1.6) Durand et al.45 N/A bwa aligner (V0.7.17) Li and Durbin46 N/A dcHiC command line tool Chakraborty et al.47 N/A Juicebox software Robinson et al.48 N/A multiHiCcompare Stansfield et al.49 N/A 16 Cell Reports 44, 116439, October 28, 2025 .. Pvt1 PAS (P) mice were generated using CRISPR/Cas9-mediated engineering in C57BL/6J blastocysts at Jackson Laboratory.

    Software:

    Article Title: Long noncoding RNA-dependent control of Myc transcriptional bursting.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Brd4 Abcam Cat#ab128874 pHH3 Cell Signaling Cat#9701S Myc, clone Y69 Abcam Cat#ab32072 Hsp90 Cell Signaling Cat#4877S Alexa Fluor 488 AffiniPure Goat Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#111-545-003 Peroxidase AffiniPure Donkey Anti-Rabbit IgG (H + L) Jackson Immunoresearch Cat#711-035-152 FITC-conjugated anti-BrdU antibody, clone B44 BD Biosciences Cat#347583 Bacterial and virus strains Adenoviral Cre (High Titer) University of Iowa, Viral Vector Core Facility N/A Stable Competent E.coli (High Efficiency) New England Biolabs Cat#C3040H Chemicals, peptides, and recombinant proteins 2-mercaptoethanol Gibco Cat#21985-023 Puromycin dihydrochloride Millipore Sigma Cat#P9620 MG132 Millipore Sigma Cat#M7449 Cycloheximide Millipore Sigma Cat#C4859 Hexadimethrine bromide (polybrene) Millipore Sigma Cat#107689 Formaldehyde, 16%, methanol-free ThermoFisher Scientific Cat#28908 1xPBS, RNAse-free ThermoFisher Scientific Cat#J62851AK Formamide ThermoFisher Scientific Cat#17899 Vectashield mounting media with DAPI Vector Laboratories Cat#H-1200 BSA, RNAse-free Jackson Immunoresearch Cat#001-000-162 Fast SYBR Green PCR Master Mix ThermoFisher Scientific Cat#4385614 GoTaq Green PCR Master Mix Promega Cat#M7123 BrdU Millipore Sigma Cat#B5002 Dual Endogenous Enzyme Block DAKO Cat#S-2003 Avidin/Biotin block Vector Laboratories Cat#SP-2001 CAS-Block Invitrogen Cat#008120 Stellaris® RNA FISH Hybridization Buffer LGC Biosciences Cat#SMF-HB1-10 Stellaris® RNA FISH Wash Buffer A LGC Biosciences Cat#SMF-WA1-60 Stellaris® RNA FISH Wash Buffer B LGC Biosciences Cat#SMF-WB1-20 Formaldehyde solution Millipore Sigma Cat#252549 Hematoxylin Solution, Gill No.2 Millipore Sigma Cat#GHS232 Critical commercial assays RNeasy Mini Kit Qiagen Cat#74106 RNAse-free DNase Set Qiagen Cat#79254 TissueRuptor II Qiagen Cat#9002755 High Capacity cDNA Reverse Transcription Kit ThermoFisher Scientific Cat#4368814 Pierce ECL Prime Western Blotting Substrate ThermoFisher Scientific Cat#32209 Vectastain Elite ABC Peroxidase Kit Vector Laboratories Cat#PK-6101 DAB Peroxidase (HRP) Substrate Kit Vector Laboratories Cat#SK-4100 (Continued on next page) Cell Reports 44, 116439, October 28, 2025 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data RNA-seq This paper GEO: GSE306107 ATAC-seq This paper GEO: GSE306101 Hi-C This paper GEO: GSE306102 Experimental models: Cell lines E13.5 MEFs Pvt1P/P and Pvt1+/+, littermate, primary This paper N/A E13.5 MEFs Pvt1P/P; p53+/+ and Pvt1P/P; p53-/-, littermate, primary This paper N/A PR MEFs, puromycin-sensitive: p53LSL/LSL; Rosa26-CreERT2 Olivero et al.23 N/A 293 ATCC Cat#CRL-1573 Phoenix ecotrophic ATCC CatCRL-3214 Experimental models: Organisms/strains Pvt1 PAS: B6-Pvt1P/P This paper N/A p53 null: B6.129S2-Trp53tm1Tyj/J Jackson Laboratories RRID: IMSR_JAX:002101 Kras-LA1: 129-Krastm1Tyj/J Generously provided by Dr. Jonathan Kurie, MD Anderson Cancer Center RRID: IMSR_JAX:002674 KP: B6.129-Krastm4Tyj Trp53tm1Brn/J Jackson Laboratories RRID:IMSR_JAX:032435 Oligonucleotides gRNAs sequences, see Table S5 This paper N/A Genotyping primers, see Table S5 This paper N/A qRT-PCR primers, see Table S5 This paper N/A Stellaris FISH Probes, Custom Assay with Quasar® 670 Dye, see Table S5 LGC Biosciences Cat#SMF-1065-5 Stellaris FISH Probes, Custom Assay with Quasar® 570 Dye, see Table S5 LGC Biosciences Cat#SMF-1063-5 Recombinant DNA pCMV-dR8.2 dvpr Addgene Cat#8455 pCMV-VSV-G Addgene Cat#8454 pLPC-E1A Dimitrova et al.34 N/A BRD1-gRNA Generously provided by Broad Institute N/A Software and algorithms Zen2.6 Pro software Zeiss N/A ImageJ FIJI N/A Prism8 GraphPad N/A STAR (2.7.11a) Dobin et al.35 N/A HTseq Anders et al.36 N/A DESeq2 Love et al.37 N/A clusterProfiler Yu et al.38 N/A Msigdbr (V2025.1.Hs) Liberzon et al.39 N/A ggplot2 Wickham et al.40 N/A deeptools (V3.5.2) Ramirez et al.41 N/A IGV (Integrative Genomics Viewer) Robinson et al.42 N/A MACS2 Zhang et al.43 N/A Bedtools Quinlan et al.44 N/A Juicer command tool (V1.6) Durand et al.45 N/A bwa aligner (V0.7.17) Li and Durbin46 N/A dcHiC command line tool Chakraborty et al.47 N/A Juicebox software Robinson et al.48 N/A multiHiCcompare Stansfield et al.49 N/A 16 Cell Reports 44, 116439, October 28, 2025 .. Pvt1 PAS (P) mice were generated using CRISPR/Cas9-mediated engineering in C57BL/6J blastocysts at Jackson Laboratory.



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