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Series GSE35099 Query DataSets for GSE35099
Status Public on Dec 31, 2014
Title Allele specific RNA polymerase occupancy and gene expression analysis for 8 CEPH lymphoblastoid cell lines.
Organism Homo sapiens
Experiment type Expression profiling by SNP array
Genome variation profiling by SNP array
Genome binding/occupancy profiling by SNP array
Summary Allelic variation in gene expression is common in human genome. To understand genetic and epigenetic basis of allelic gene expression variation, we conducted allele specific RNA polymerase occupancy and allele specific gene expression analysis in CEPH lymphoblastoid cell lines.
Overall design DNAs, RNAs and chromatin lysates were isolated at the same culturing condition across 8 cell lines. DNA analysis were performed following the standard Affymetrix SNP array protocol. RNAs were amplified using Affymetrix amplified double strand cDNA synthesis kit. DNAs from RNApolymerase ChIP were amplified using SIGMA WGA kit. Amplified cDNAs and ChIP DNAs were fragmented labelled and hybridized on Nsp/Sty arrays following the standard protocol.
Contributor(s) Kadota M, Yang HH, Gere S, Clifford RJ, Yan C, Edmonson M, Finney R, Meerzaman D, Dunn BK, Hu N, Wang C, Taylor PR, Buetow KH, Lee MP
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Submission date Jan 13, 2012
Last update date May 17, 2017
Contact name Howard Yang
Phone 2402765257
Organization name NCI
Street address 9609 Medical Center Dr.
City Rockville
State/province MD
ZIP/Postal code 20850
Country USA
Platforms (2)
GPL3718 [Mapping250K_Nsp] Affymetrix Mapping 250K Nsp SNP Array
GPL3720 [Mapping250K_Sty] Affymetrix Mapping 250K Sty2 SNP Array
Samples (48)
GSM861984 GM06991 cells gDNA Nsp array
GSM861985 GM06991 cells gDNA Sty array
GSM861986 GM06991 cells RNA polymerase ChIP Nsp array
BioProject PRJNA150887

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
GSE35099_AplusB8GMs3types.ns.txt.gz 92.1 Mb (ftp)(http) TXT
GSE35099_RAW.tar 946.7 Mb (http)(custom) TAR (of CEL)
Processed data are available on Series record

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