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Series GSE51106 Query DataSets for GSE51106
Status Public on Jan 21, 2014
Title Androgen receptor uses relaxed response element stringency for selective chromatin binding and transcriptional regulation in vivo
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 caput epididymis of intact SPARKI and wild-type mice using ChIP-sequencing. SPARKI (specificity affecting androgen receptor knock-in) mouse line has the second zinc finger of AR replaced by that of glucocorticoid receptors. In vivo analysis of SPARKI and wild-type AR genome-wide binding sites identified cis-element with less stringent sequence requirements that specify selective AR-binding sites. The ChIP experiments have been performed using antibody specific to AR and IgG non-specific antibody as a negative control.
Overall design Examination of AR binding sites in epididymis of wild-type and SPARKI mice using ChIP-seq. Two biological replicates from intact wild-type and SPARKI mice and two control IgG samples were sequenced and used in peak calling. To increase the depth of the analysis, replicate ChIP-seq samples were merged and the concatanated samples were used in peak calling.
Contributor(s) Sahu B, Pihlajamaa P, Dubois V, Kerkhofs S, Claessens F, Jänne OA
Citation(s) 24459135
Submission date Sep 23, 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 (9)
GSM1238905 AR_wt1
GSM1238906 AR_wt2
BioProject PRJNA221193
SRA SRP030212

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Supplementary file Size Download File type/resource
GSE51106_RAW.tar 190.0 Kb (http)(custom) TAR (of BED)
GSE51106_SPARKI_AR_vs_IgG_homer_peaks_FDR2.bed.gz 138.5 Kb (ftp)(http) BED
GSE51106_SPARKI_AR_vs_IgG_macs2_homer_ovl_peaks.bed.gz 98.5 Kb (ftp)(http) BED
GSE51106_SPARKI_AR_vs_IgG_macs2_peaks_FDR5.bed.gz 128.5 Kb (ftp)(http) BED
GSE51106_WT_AR_vs_IgG_homer_peaks_FDR2.bed.gz 156.4 Kb (ftp)(http) BED
GSE51106_WT_AR_vs_IgG_macs2_homer_ovl_peaks.bed.gz 149.5 Kb (ftp)(http) BED
GSE51106_WT_AR_vs_IgG_macs2_peaks_FDR5.bed.gz 191.6 Kb (ftp)(http) BED
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Processed data are available on Series record

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