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Series GSE52941 Query DataSets for GSE52941
Status Public on Mar 06, 2015
Title CIITA regulated genes in human B cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The MHC class II transactivator (CIITA) is essential for the expression of MHC-II genes. CIITA functions as a transcriptional activator when bound to genes although repressive roles have been reported at some loci in other cell types. To define the role of CIITA in gene regulation in human B cells, we performed ChIP-seq for CIITA using three independent antibodies, the histone marks H3K4me3 and H3K27ac, and ATAC-seq in the Raji human B cell line. Additionally, we profiled H3K27ac and ATAC-seq in the CIITA-null RJ2.2.5 cell line. A core set of CIITA peaks were identified that overlapped in all antibodies. Using the H3K27ac, H3K4me3, and ATAC-seq profiles generated in CIITA+ Raji and CIITA-null RJ2.2.5 cells CIITA dependent chromatin modifications were identified. These data define the CIITA regulated genes in human B cells.
 
Overall design Examination of CIITA binding sites and correlation with active histone modifiations and accessible chromatin in Raji and RJ2.2.5 cells
 
Contributor(s) Scharer C, Boss J
Citation(s) 25753668
Submission date Dec 03, 2013
Last update date May 15, 2019
Contact name Chris Scharer
E-mail(s) cdschar@emory.edu
Organization name Emory University
Department Microbiology and Immunology
Lab Jeremy Boss
Street address 1510 Clifton Rd, Suite 3120
City Atlanta
State/province GA
ZIP/Postal code 30322
Country USA
 
Platforms (2)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (15)
GSM1602232 Raji CIITA Boss Lab
GSM1602233 Raji CIITA Rockland rep1
GSM1602234 Raji CIITA Rockland rep2
Relations
BioProject PRJNA230503
SRA SRP033456

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE52941_CIITA.peaks.annotated.txt.gz 24.4 Kb (ftp)(http) TXT
GSE52941_RAW.tar 3.5 Gb (http)(custom) TAR (of BED, BIGWIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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