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| Status |
Public on Apr 18, 2017 |
| Title |
MCF7 breast cancer cell response to estradiol |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The experiment was designed to uncover the response to estradiol (E2) in MCF7 breast cancer cells. The first step was to create a reference sample in a ligand free environment. For that, the cells were placed into estradiol free media for 3 days, which reduced the binding between ER-alpha and E2. The cells were then ready to be re-exposed to E2. Following the introduction of E2, the resultant changes were tracked by multiple ChIP-seq experiments. The experiments were performed at 0, 5, 10, 20, 40, 80, 160, 320, 640 and 1280 minutes after the stimulation. Each ChIP-seq experiment was carried out with a different antibody to measure genome-wide changes in genomic occupancy of their specific protein targets. Specifically, the studied protein factors and histone modifications were: ER-alpha, H3K4me3, and H2AZ. Other previously published data from the same set of experiments are available for Pol-II ChIP-Seq and RNA-Seq (GEO accession GSE62789 and GSE44800).
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| Overall design |
ChIP-seq using 3 different antibodies at 10 different times after estradiol treatment of MCF7 cells
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| Contributor(s) |
Dzida T, Iqbal M, Charapitsa I, Matarese F, Stunnenberg HG, Reid G, Honkela A, Rattray M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jan 24, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
H. G. Stunnenberg |
| E-mail(s) |
h.stunnenberg@ncmls.ru.nl
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| Phone |
+31-24-3610520
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| Organization name |
Radboud University
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| Department |
Department of Molecular Biology (274)
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| Street address |
Geert Grooteplein 28
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| City |
Nijmegen |
| ZIP/Postal code |
6525 GA |
| Country |
Netherlands |
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| Platforms (2) |
| GPL10999 |
Illumina Genome Analyzer IIx (Homo sapiens) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (29)
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| Relations |
| BioProject |
PRJNA363069 |
| SRA |
SRP097701 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE94023_RAW.tar |
17.9 Gb |
(http)(custom) |
TAR (of BED) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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