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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 09, 2010 |
| Title |
Transcriptional Networks in Mouse Trophoblast Stem Cell Self-Renewal |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
Genome binding/occupancy profiling by genome tiling array
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| Summary |
Trophoblast stem cells (TS cells), derived from the trophectoderm (TE) of blastocysts, require transcription factors (TFs) and external signals (Fgf4, Activin/Nodal/Tgfb) for self-renewal. While many reports have focused on TF networks that regulate embryonic stem cell (ES cell) self-renewal and pluripotency, little is know about TF networks that regulate self-renewal in TS cells. To further understand transcriptional networks in TS cells we used chromatin immunopreciptiation and DNA microarray analysis (ChIP-chip) to investigate targets of TFs Ap-2g (Tcfap2c), Eomes, Ets2, and Gata3, and a chromatin remodeling factor, Brg1 (Smarca4). We then evaluated the transcriptional states of target genes using transcriptome analysis and genome-wide analysis of histone H3 acetylation (AcH3). Our results describe previously unknown transcriptional networks in TS cells, including TF occupancy of genes involved in ES cell self-renewal and pluripotency, co-occupancy of multiple TFs at target genes, and transcriptional regulatory circuitry within the 5 factors. Through genome-wide mapping and global expression analysis of 5 TF target genes, our data provide a comprehensive analysis of transcriptional networks that regulate TS cell self-renewal.
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| Overall design |
RNA was harvested at 7 time points from TS cells cultured without Fgf4 over two weeks for transcriptome analysis. RNA was collected from undifferentiated TS cells at T=0hr, and differentiated TS cells cultured without Fgf4 for 24-hrs, 48-hrs, 72-hrs, 6 days, 10 days, and 14 days.
Mouse TS cells were ChIPed with antibodies specific to Ap-2g (Tcfap2c), Brg1 (Smarca4), Eomes, Ets2, and Gata3 vs. Input DNA from TS cells
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| Contributor(s) |
Kidder BL |
| Citation(s) |
20176728 |
| Submission date |
Oct 09, 2009 |
| Last update date |
Feb 11, 2019 |
| Contact name |
Benjamin L Kidder |
| Organization name |
EMD Serono Research Institute
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| Department |
Reproductive Health
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| Street address |
1 Technology Place
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| City |
Rockland |
| State/province |
MA |
| ZIP/Postal code |
02370 |
| Country |
USA |
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| Platforms (2) |
| GPL1261 |
[Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array |
| GPL5811 |
[Mm_PromPR] Affymetrix Mouse Promoter 1.0R Array |
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| Samples (19)
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| GSM461165 |
TS cell, 24hr, rep2 |
| GSM461166 |
TS cell, 48hr, rep1 |
| GSM461167 |
TS cell, 48hr, rep2 |
| GSM461168 |
TS cell, 72hr, rep1 |
| GSM461169 |
TS cell, 72hr, rep2 |
| GSM461170 |
TS cell, day 6, rep1 |
| GSM461171 |
TS cell, day 6, rep2 |
| GSM461172 |
TS cell, day 10, rep1 |
| GSM461173 |
TS cell, day 10, rep2 |
| GSM461174 |
TS cell, day 14, rep1 |
| GSM461175 |
TS cell, day 14, rep2 |
| GSM461461 |
Tcfap2c_Genome_mm8_1 |
| GSM461462 |
Smarca4_Genome_mm8_1 |
| GSM461463 |
Eomes_Genome_mm8_1 |
| GSM461464 |
Ets2_Genome_mm8_1 |
| GSM461465 |
Gata3_Genome_mm8_1 |
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| Relations |
| BioProject |
PRJNA118267 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE18507_RAW.tar |
680.7 Mb |
(http)(custom) |
TAR (of BAR, CEL) |
| Raw data provided as supplementary file |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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