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| Status |
Public on Nov 12, 2014 |
| Title |
Chromatin dynamics of p53 binding sites in IMR90 |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
We report the chromatin modification dynamics at p53 binding sites upon treatment with DMSO or nutlin3-a (5uM) in IMR90 human lung fibroblasts using ChIP-seq and RNA-seq analyses.
We assessed the genomewide changes in H3, H3K4me3, H3K4me2, H3K4me1, H3K27ac, H4K16ac, RNA polymerase II, and p53 in response to p53 activation.
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| Overall design |
ChIP-seq of 8 histone modifications or proteins for 2 conditions in 1 cell line.
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| Contributor(s) |
Sammons M, Berger S |
| Citation(s) |
25391375 |
| Submission date |
Jun 23, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Morgan Sammons |
| Organization name |
University of Pennsylvania
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| Street address |
3400 Civic Center Blvd
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| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19129 |
| Country |
USA |
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| Platforms (2) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (22)
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| Relations |
| BioProject |
PRJNA253315 |
| SRA |
SRP043510 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE58740_RAW.tar |
8.9 Gb |
(http)(custom) |
TAR (of BED, BEDGRAPH, BIGWIG, TXT) |
| GSE58740_RNAseq_FPKM_DMSOvNutlin.txt.gz |
659.3 Kb |
(ftp)(http) |
TXT |
| GSE58740_RNAseq_FPKM_DMSOvsNutlin_IMR90.txt.gz |
733.2 Kb |
(ftp)(http) |
TXT |
| GSE58740_p53Nut_Enhancers_hg19.bed.gz |
20.4 Kb |
(ftp)(http) |
BED |
| GSE58740_p53Nut_Protoenhancers_hg19.bed.gz |
25.3 Kb |
(ftp)(http) |
BED |
| GSE58740_p53Nut_TSS_hg19.bed.gz |
12.1 Kb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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