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Series GSE42617 Query DataSets for GSE42617
Status Public on Jan 01, 2013
Title ChIP-chip of 6 chromatin marks (FAIRE, H3K4me1, H3K4me3, H3K27me3, H3R17me2, H3AZAce) in breast cancer cell line MCF7
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary Altered gene expression patterns in human diseases reflect perturbations in the transcriptional networks that regulate cellular state. In breast cancer, Nuclear Receptors (NRs) play a prominent role in governing gene expression. NRs have prognostic utility and are therapeutically important targets. Here we describe a complete regulatory map for twenty-four NR proteins that are expressed in the breast cancer cell line MCF-7, as well as fourteen additional breast cancer associated transcription factors (TFs) and six key chromatin state markers.
 
Overall design Input DNA was used as control against all 6 Chromatin ChIPchip samples grown in complete medium. All samples are done in triplicates.
 
Contributor(s) Kittler R, Zhou J, Hua S, Ma L, Liu Y, Cheng C, Gerstein M, White K
Citation(s) 23375374
Submission date Nov 29, 2012
Last update date Mar 21, 2017
Contact name Jie Zhou
E-mail(s) jiezhou@uchicago.edu
Phone 3123163491
Organization name University of Chicago IGSB
Street address 900 East 57th Street, KCBD 10100
City Chicago
State/province ILLINOIS
ZIP/Postal code 60637
Country USA
 
Platforms (7)
GPL4910 [Hs35b_P01R] Affymetrix Human Tiling 2.0R Set, Array 1
GPL4911 [Hs35b_P02R] Affymetrix Human Tiling 2.0R Set, Array 2
GPL4912 [Hs35b_P03R] Affymetrix Human Tiling 2.0R Set, Array 3
Samples (42)
GSM1045819 FAIRE-array1
GSM1045820 FAIRE-array2
GSM1045821 FAIRE-array3
Relations
BioProject PRJNA182368

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
GSE42617_FAIRE.bed.gz 181.2 Kb (ftp)(http) BED
GSE42617_H2AZ_Ace.bed.gz 363.4 Kb (ftp)(http) BED
GSE42617_H3K27ME3.bed.gz 56.8 Kb (ftp)(http) BED
GSE42617_H3K4ME1.bed.gz 136.8 Kb (ftp)(http) BED
GSE42617_H3K4ME3.bed.gz 262.6 Kb (ftp)(http) BED
GSE42617_H3R17ME2.bed.gz 86.4 Kb (ftp)(http) BED
GSE42617_RAW.tar 4.4 Gb (http)(custom) TAR (of BAR, CEL)
GSE42617_input1-1.CEL.gz 22.3 Mb (ftp)(http) CEL
GSE42617_input1-2.CEL.gz 23.3 Mb (ftp)(http) CEL
GSE42617_input1-3.CEL.gz 23.1 Mb (ftp)(http) CEL
GSE42617_input1-4.CEL.gz 22.4 Mb (ftp)(http) CEL
GSE42617_input1-5.CEL.gz 22.9 Mb (ftp)(http) CEL
GSE42617_input1-6.CEL.gz 22.5 Mb (ftp)(http) CEL
GSE42617_input1-7.CEL.gz 22.5 Mb (ftp)(http) CEL
GSE42617_input2-1.CEL.gz 21.9 Mb (ftp)(http) CEL
GSE42617_input2-2.CEL.gz 22.1 Mb (ftp)(http) CEL
GSE42617_input2-3.CEL.gz 21.4 Mb (ftp)(http) CEL
GSE42617_input2-4.CEL.gz 22.0 Mb (ftp)(http) CEL
GSE42617_input2-5.CEL.gz 22.3 Mb (ftp)(http) CEL
GSE42617_input2-6.CEL.gz 21.0 Mb (ftp)(http) CEL
GSE42617_input2-7.CEL.gz 22.0 Mb (ftp)(http) CEL
GSE42617_input3-1.CEL.gz 23.7 Mb (ftp)(http) CEL
GSE42617_input3-2.CEL.gz 25.0 Mb (ftp)(http) CEL
GSE42617_input3-3.CEL.gz 24.4 Mb (ftp)(http) CEL
GSE42617_input3-4.CEL.gz 24.1 Mb (ftp)(http) CEL
GSE42617_input3-5.CEL.gz 24.1 Mb (ftp)(http) CEL
GSE42617_input3-6.CEL.gz 24.1 Mb (ftp)(http) CEL
GSE42617_input3-7.CEL.gz 23.9 Mb (ftp)(http) CEL
Processed data provided as supplementary file
Processed data are available on Series record
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