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| Status |
Public on Apr 24, 2014 |
| Title |
Genome-scale analysis in blood progenitor and mast cells reveals how lineage-affiliated transcription factors control distinct regulatory programs [ChIP-Seq/RNA-Seq Experiments] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Despite major advances in the generation of genome-wide binding maps, the mechanisms by which transcription factors (TFs) regulate cell type identity have remained largely obscure. Through comparative analysis of 10 key haematopoietic TFs in both mast cells and blood progenitors, we demonstrate that the largely cell-type specific binding profiles are not opportunistic, but instead contribute to cell-type specific transcriptional control, because (1) mathematical modelling of differential binding of shared TFs can explain differential gene expression, (2) cell-type specific binding is largely mediated through consensus binding sites, and (3) knock-down of blood stem cell regulators Gata2 and Erg in mast cells reveals mast cell specific genes as direct targets. Finally we show that the known mast cell regulators Mitf and c-Fos likely contribute to the global reorganisation of TF binding profiles. Taken together therefore, our study elucidates how key regulatory TFs contribute to transcriptional programmes in several distinct mammalian cell types.
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| Overall design |
Comparison of HPC7 cell line (haematopoietic multipotent progenitor) and primary mast cells. 10 key haematopoietic transcription factors and mRNA expression were profiled in both cell types.
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| Contributor(s) |
Calero-Nieto FJ, Ng FS, Wilson NK, Hannah R, Diamanti E, Moignard V, Leal-Cervantes AI, Jimenez-Madrid I, Wernisch L, Gottgens B |
| Citation(s) |
24760698 |
| |
| Submission date |
Jun 19, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Felicia Ng |
| Organization name |
Cambridge Institute for Medical Research
|
| Street address |
Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
|
| City |
Cambridge |
| ZIP/Postal code |
CB3 9BB |
| Country |
United Kingdom |
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| Platforms (2) |
| GPL11002 |
Illumina Genome Analyzer IIx (Mus musculus) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
|
| Samples (20)
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| This SubSeries is part of SuperSeries: |
| GSE48086 |
Genome-scale analysis in blood progenitor and mast cells reveals how lineage-affiliated transcription factors control distinct regulatory programs |
|
| Relations |
| BioProject |
PRJNA208892 |
| SRA |
SRP026165 |
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