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| Status |
Public on Aug 21, 2017 |
| Title |
p53 pulses lead to distinct patterns of gene expression albeit similar DNA-binding dynamics |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Investigation of mechanism of gene regulation in response to pulses in p53 protein level induced by gamma irradiation. To directly connect p53 pulses with gene expression, we collected time-course ChIP-Seq and RNA-Seq data.
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| Overall design |
Time course p53, H3K27ac ChIP-Seq and RNA-Seq data in MCF7 cells treated with 10Gy gamma irradiation. As well as time course RNA-Seq data in MCF7 cells expressing p53shRNA.
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| Contributor(s) |
Hafner A, Lahav G |
| Citation(s) |
28825732 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 GM083303 |
Dynamics of Signaling Pathways: Mechanism and Function |
HARVARD UNIVERSITY (MEDICAL SCHOOL) |
Galit Lahav |
| K99 CA207727 |
Defining and manipulating quiescence associated DNA damage resistance in single cells |
HARVARD UNIVERSITY (MEDICAL SCHOOL) |
Jacob Stewart-Ornstein |
| R01 HG003985 |
High-Resolution Analysis of Transcription Factors' DNA Binding Specificities |
BRIGHAM AND WOMEN'S HOSPITAL |
MARTHA L BULYK |
| K99 GM102372 |
Dynamics of cellular senescence in single human cells |
HARVARD UNIVERSITY (MEDICAL SCHOOL) |
Jeremy Purvis |
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| Submission date |
Jun 15, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Antonina Hafner |
| Organization name |
Harvard Medical School
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| Department |
Systems Biology
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| Lab |
Galit Lahav
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| Street address |
200 Longwood Avenue
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| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (90)
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| GSM2671218 |
RNA-Seq, t=3 h, IR 10Gy, rep1 |
| GSM2671219 |
RNA-Seq, t=4 h, IR 10Gy, rep1 |
| GSM2671220 |
RNA-Seq, t=5 h, IR 10Gy, rep1 |
| GSM2671221 |
RNA-Seq, t=6 h, IR 10Gy, rep1 |
| GSM2671222 |
RNA-Seq, t=7 h, IR 10Gy, rep1 |
| GSM2671223 |
RNA-Seq, t=8 h, IR 10Gy, rep1 |
| GSM2671224 |
RNA-Seq, t=9 h, IR 10Gy, rep1 |
| GSM2671225 |
RNA-Seq, t=10 h, IR 10Gy, rep1 |
| GSM2671226 |
RNA-Seq, t=11 h, IR 10Gy, rep1 |
| GSM2671227 |
RNA-Seq, t=12 h, IR 10Gy, rep1 |
| GSM2671228 |
RNA-Seq, t=24 h, IR 10Gy, rep1 |
| GSM2671229 |
RNA-Seq, t=0 h, rep1_p53sh |
| GSM2671230 |
RNA-Seq, t=2 h, IR 10Gy, rep1_p53sh |
| GSM2671231 |
RNA-Seq, t=3 h, IR 10Gy, rep1_p53sh |
| GSM2671232 |
RNA-Seq, t=4 h, IR 10Gy, rep1_p53sh |
| GSM2671233 |
RNA-Seq, t=5 h, IR 10Gy, rep1_p53sh |
| GSM2671234 |
RNA-Seq, t=7 h, IR 10Gy, rep1_p53sh |
| GSM2671235 |
RNA-Seq, t=9 h, IR 10Gy, rep1_p53sh |
| GSM2671236 |
RNA-Seq, t=10 h, IR 10Gy, rep1_p53sh |
| GSM2671237 |
RNA-Seq, t=0 h, rep2_1 |
| GSM2671238 |
RNA-Seq, t=1 h, IR 10Gy, rep2 |
| GSM2671239 |
RNA-Seq, t=2 h, IR 10Gy, rep2 |
| GSM2671240 |
RNA-Seq, t=3 h, IR 10Gy, rep2 |
| GSM2671241 |
RNA-Seq, t=4 h, IR 10Gy, rep2 |
| GSM2671242 |
RNA-Seq, t=5 h, IR 10Gy, rep2 |
| GSM2671243 |
RNA-Seq, t=6 h, IR 10Gy, rep2 |
| GSM2671244 |
RNA-Seq, t=7 h, IR 10Gy, rep2 |
| GSM2671245 |
RNA-Seq, t=8 h, IR 10Gy, rep2 |
| GSM2671246 |
RNA-Seq, t=9 h, IR 10Gy, rep2 |
| GSM2671247 |
RNA-Seq, t=10 h, IR 10Gy, rep2 |
| GSM2671248 |
RNA-Seq, t=11 h, IR 10Gy, rep2 |
| GSM2671249 |
RNA-Seq, t=12 h, IR 10Gy, rep2 |
| GSM2671250 |
RNA-Seq, t=24 h, IR 10Gy, rep2 |
| GSM2671251 |
RNA-Seq, t=0 h, rep2_p53sh |
| GSM2671252 |
RNA-Seq, t=2 h, IR 10Gy, rep2_p53sh |
| GSM2671253 |
RNA-Seq, t=3 h, IR 10Gy, rep2_p53sh |
| GSM2671254 |
RNA-Seq, t=4 h, IR 10Gy, rep2_p53sh |
| GSM2671255 |
RNA-Seq, t=5 h, IR 10Gy, rep2_p53sh |
| GSM2671256 |
RNA-Seq, t=7 h, IR 10Gy, rep2_p53sh |
| GSM2671257 |
RNA-Seq, t=9 h, IR 10Gy, rep2_p53sh |
| GSM2671258 |
RNA-Seq, t=10 h, IR 10Gy, rep2_p53sh |
| GSM2671259 |
RNA-Seq, t=0 h, rep1_2 |
| GSM2671260 |
RNA-Seq, t=3 h, IR 10Gy + Nutlin, rep1 |
| GSM2671261 |
RNA-Seq, t=4 h, IR 10Gy + Nutlin, rep1 |
| GSM2671262 |
RNA-Seq, t=5 h, IR 10Gy + Nutlin, rep1 |
| GSM2671263 |
RNA-Seq, t=6 h, IR 10Gy + Nutlin, rep1 |
| GSM2671264 |
RNA-Seq, t=7 h, IR 10Gy + Nutlin, rep1 |
| GSM2671265 |
RNA-Seq, t=8 h, IR 10Gy + Nutlin, rep1 |
| GSM2671266 |
RNA-Seq, t=9 h, IR 10Gy + Nutlin, rep1 |
| GSM2671267 |
RNA-Seq, t=10 h, IR 10Gy + Nutlin, rep1 |
| GSM2671268 |
RNA-Seq, t=11 h, IR 10Gy + Nutlin, rep1 |
| GSM2671269 |
RNA-Seq, t=12 h, IR 10Gy + Nutlin, rep1 |
| GSM2671270 |
RNA-Seq, t=24 h, IR 10Gy + Nutlin, rep1 |
| GSM2671271 |
RNA-Seq, t=0 h, rep2_2 |
| GSM2671272 |
RNA-Seq, t=3 h, IR 10Gy + Nutlin, rep2 |
| GSM2671273 |
RNA-Seq, t=4 h, IR 10Gy + Nutlin, rep2 |
| GSM2671274 |
RNA-Seq, t=5 h, IR 10Gy + Nutlin, rep2 |
| GSM2671275 |
RNA-Seq, t=6 h, IR 10Gy + Nutlin, rep2 |
| GSM2671276 |
RNA-Seq, t=7 h, IR 10Gy + Nutlin, rep2 |
| GSM2671277 |
RNA-Seq, t=8 h, IR 10Gy + Nutlin, rep2 |
| GSM2671278 |
RNA-Seq, t=9 h, IR 10Gy + Nutlin, rep2 |
| GSM2671279 |
RNA-Seq, t=10 h, IR 10Gy + Nutlin, rep2 |
| GSM2671280 |
RNA-Seq, t=11 h, IR 10Gy + Nutlin, rep2 |
| GSM2671281 |
RNA-Seq, t=12 h, IR 10Gy + Nutlin, rep2 |
| GSM2671282 |
RNA-Seq, t=24 h, IR 10Gy + Nutlin, rep2 |
| GSM2671283 |
RNA-Seq, t=0 h, rep3 |
| GSM2671284 |
RNA-Seq, t=1 h, IR 10Gy , rep3 |
| GSM2671285 |
RNA-Seq, t=2.5 h, IR 10Gy, rep1 |
| GSM2671286 |
RNA-Seq, t=4 h, IR 10Gy, rep3 |
| GSM2671287 |
RNA-Seq, t=5 h, IR 10Gy , rep3 |
| GSM2671288 |
RNA-Seq, t=7.5 h, IR 10Gy, rep1 |
| GSM2671289 |
RNA-Seq, t=7.5 h, IR 10Gy + Nutlin, rep1 |
| GSM2671290 |
p53 ChIP-Seq, t=0h |
| GSM2671291 |
p53 ChIP-Seq, t=1h, IR 10Gy |
| GSM2671292 |
p53 ChIP-Seq, t=2.5h, IR 10Gy |
| GSM2671293 |
p53 ChIP-Seq, t=4h, IR 10Gy |
| GSM2671294 |
p53 ChIP-Seq, t=5h, IR 10Gy |
| GSM2671295 |
p53 ChIP-Seq, t=7.5h, IR 10Gy |
| GSM2671296 |
p53 ChIP-Seq, t=7.5h, IR 10Gy+Nutlin |
| GSM2671297 |
H3K27ac ChIP-Seq, t=0h |
| GSM2671298 |
H3K27ac ChIP-Seq, t=2.5h |
| GSM2671299 |
H3K27ac ChIP-Seq, t=5h |
| GSM2671300 |
H3K27ac ChIP-Seq, t=7.5h |
| GSM2671301 |
ChIP input, t=0h |
| GSM2671302 |
ChIP input, t=2.5h |
| GSM2671303 |
ChIP input, t=5h |
| GSM2671304 |
ChIP input, t=7.5h |
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| Relations |
| BioProject |
PRJNA390679 |
| SRA |
SRP109318 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE100099_RAW.tar |
490.1 Mb |
(http)(custom) |
TAR (of BEDGRAPH) |
| GSE100099_RNASeqGEO.tsv.gz |
3.8 Mb |
(ftp)(http) |
TSV |
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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