Zhang 2013, beta-catenin in mouse embryonic stem cells treated with GSK3 inhibitor

Description:

bCatenin ChIP-seq using anti-FLAG antibody and Streptavidin were otained from embryonic stem cells treated by CHIR99021 for 24 hours. Input without IP process were used as the control. Peaks files provided by the authors were also included in the collection.

Source

Files downloaded from GEO series: GSE43565
Input file format: SRA and BED

Samples

From M. musculus (July 2007 NCBI37/mm9).

Filename Description Feature GEO-ID
1 GSM1065517_bCatenin-FLAG.sga ES cells|bCatenin-FLAG bCatenin-FLAG GSM1065517
2 GSM1065518_bCatenin-Biotin.sga ES cells|bCatenin-Biotin bCatenin-Biotin GSM1065518
3 GSM1065519_bCatenin-BIOTINnoGSK.sga ES cells|bCatenin-BIOTINnoGSK bCatenin-BIOTINnoGSK GSM1065519
4 GSM1065520_GSK_input.sga ES cells|Input GSK GSK GSM1065520
5 GSM1065521_noGSK_input.sga ES cells|Input noGSK noGSK GSM1065521
6 GSM1065517_ESC_Bcat_GSK_FLAG_peaks.sga ES cells|bCatenin-FLAG peaks beta-catenin_peaks GSM1065517
7 GSM1065518_ESC_Bcat_GSK_Biotin_peaks.sga ES cells|bCatenin-Biotin peaks beta-catenin_peaks GSM1065518
8 GSM1065519_ESC_Bcat_noGSK_FLAG_peaks.sga ES cells|bCatenin-BIOTINnoGSK peaks beta-catenin_peaks GSM1065519

Technical Notes:

SRA files were dowloaded from GEO and processed with in-house software to make SGA files. BED files representing enriched region (peaks) were converted into SGA using the peak mid-point as SGA reference position.

References:

  1. Zhang X, Peterson KA, Liu XS, McMahon AP, Ohba S.
    Gene regulatory networks mediating canonical Wnt signal-directed control of pluripotency and differentiation in embryo stem cells. Stem Cells. 2013 Dec;31(12):2667-79. doi: 10.1002/stem.1371 PMID:23505158

  2. GEO series GSE43565 ChIP-seq analysis of β-catenin in mouse embryonic stem cells treated with GSK3 inhibitor CHIR99021 under serum+LIF standard condition.