{"owner": "ArrayExpress Uploader", "pop_total": 0, "species": "mouse", "factors": [{"GSM188864 1": {}}, {"GSM188865 1": {}}, {"GSM188866 1": {}}, {"GSM188868 1": {}}], "id": 8818, "ownerprofile_id": "arrayexpress_sid", "platform": 8, "summary_wrapped": "The composition of chromatin remodeling complexes dictates how these enzymes control transcriptional programs and cellular identity....", "pubmed_id": 18809673, "owner_profile": "/profile/8773/arrayexpressuploader", "factor_count": 0, "sample_count": 4, "tags": ["chromatin", "protein"], "lastmodified": "Dec.12, 2014", "is_default": false, "geo_gds_id": "", "slug": "brd7-a-novel-pbaf-specific-swisnf-subunit-is-requi", "source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-7791", "geo_id_plat": "E-GEOD-7791_A-AFFY-36", "name": "Brd7, a novel PBAF-specific SWI/SNF subunit, is required for gene activation and repression in embryonic stem cells", "created": "Nov.24, 2014", "summary": "The composition of chromatin remodeling complexes dictates how these enzymes control transcriptional programs and cellular identity. Here, we investigate the composition of SWI/SNF complexes in embryonic stem cells (ESCs). In contrast to differentiated cells, ESCs have a biased incorporation of certain paralogous SWI/SNF subunits, with low levels of Brm, BAF170 and ARID1B. Upon differentiation, the expression of these subunits increases, resulting in a higher diversity of compositionally distinct SWI/SNF enzymes. We also identify Brd7 as a novel component of the PBAF complex in both ESCs and differentiated cells. Using shRNA-mediated depletion of Brg1, we show that SWI/SNF can function as both a repressor and an activator in pluripotent cells, regulating expression of developmental modifiers and signaling components such as Nodal, ADAMTS1, Bmi-1, CRABP1 and TRH. Knock-down studies of PBAF-specific Brd7 and of a signature subunit within the BAF complex, ARID1A, show that these two sub-complexes affect SWI/SNF target genes differentially, in some cases even antagonistically. This may be due to their different biochemical properties. Finally, we examine the role of SWI/SNF in regulating its target genes during differentiation. We find that SWI/SNF affects recruitment of components of the pre-initiation complex in a promoter-specific manner, to modulate transcription positively or negatively. Taken together, our results provide insight into the function of compositionally diverse SWI/SNF enzymes that underlie their inherent gene-specific mode of action. R1 ESCs were infected in duplicates with shRNA targeting Brg1 or GLUT4 (as a control). Knockdown of Brg1 mRNA affected Brg1 protein levels efficiently. RNA was isolated 67 hours post-infection and analyzed using microarrays.", "geo_gse_id": "E-GEOD-7791", "sample_source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-7791/samples/"}