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Series GSE47192 Query DataSets for GSE47192
Status Public on Jan 21, 2014
Title Tissue-specific pioneer factors associate with androgen receptor cistromes and transcription programs. [ChIP-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We report the in vivo androgen receptor (AR) binding sites in murine prostate, epididymis and kidney in response to physiological androgen testosterone using ChIP-sequencing and gene expression profiling by microarray. From AR cistrome analysis, we identified tissue-specific collaborating factors i.e. FoxA1 in prostate, Hnf4a in kidney and AP2a in epididymis and validated by ChIP-seq. The ChIP experiments have been performed using antibodies specific to AR, FoxA1, Hnf4a, AP-2a and IgG non-specific antibody as a negative control.
Overall design Examination of AR binding sites in murine androgen-responsive tissues prostate, epididymis and kidney using ChIP-seq. Further analysis of AR cistromes led to identification of tissue-specific collaborating factors and these collaborating factors are validated by ChIP-seq from the same tissues. Two parallel IgG samples were sequenced, merged together and used as a control data set. Parallel ChIP-seq samples were sequenced and merged for each replicate wherever required to contain approximately the same amount of reads across all tissues and conditions. All ChIP-seq experiments are performed in biological duplicates except for the castrated conditions.
Contributor(s) Pihlajamaa P, Sahu B, Lyly L, Aittomäki V, Hautaniemi S, Jänne OA
Citation(s) 24451200
Submission date May 22, 2013
Last update date May 15, 2019
Contact name Olli A. Jänne
Phone +358919125040
Organization name University of Helsinki
Department Inst. of Biomedicine/Physiology
Lab Androgen Receptor Laboratory
Street address Haartmaninkatu-8
City Helsinki
ZIP/Postal code FI-00014
Country Finland
Platforms (1)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (41)
GSM1146459 AR_Cast1a [prostate, castrated+vehicle]
GSM1146460 AR_Cast1b [prostate, castrated+vehicle]
GSM1146461 AR_Cast+T_rep1a [prostate, castrated+testosterone]
This SubSeries is part of SuperSeries:
GSE47194 Tissue-specific pioneer factors associate with androgen receptor cistromes and transcription programs
BioProject PRJNA205243
SRA SRP023135

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
GSE47192_AR_Pro_Cast+T_rep1_peaks.txt.gz 683.4 Kb (ftp)(http) TXT
GSE47192_AR_Pro_Cast+T_rep2_peaks.txt.gz 1.2 Mb (ftp)(http) TXT
GSE47192_AR_Pro_Cast1_peaks.txt.gz 1.0 Kb (ftp)(http) TXT
GSE47192_Hnf4a_Kid_Cast1_peaks.txt.gz 171.6 Kb (ftp)(http) TXT
GSE47192_RAW.tar 1.8 Gb (http)(custom) TAR (of TXT, WIG)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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