GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE59283 Query DataSets for GSE59283
Status Public on Oct 31, 2014
Title Genome-wide mapping of Rad21 binding sites and gene expression profiling in wild type mouse small intestinal epithelial crypts and Apc Min adenomas
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary To investigate the role of RAD21 in the transcriptional regulation of global gene expression at early stage of colorectal cancer developments, we peformed the genome-wide analysis to map genomic regions bound by Rad21 in normal small testinal crypts and tumors (adenomas) harvested from Apc Min/+ mice using ChIP-seq. ChIP-seq naalysis identified high confidence RAD21 binding sites unique to normal crypts or adenomas, as well as those common to both tissues. We further performed RNA-seq to profile the changes in gene expression from normal WT crypts to adenomas at the very early stage of adenomagenesis in the context of Rad21 heterozygous loss.
Overall design mRNA profiles of normal small intestinal crypts (WT) and adenomas from Apc Min/+ and Apc Min/+:Rad21+/- double mutant mouse; Mapping of Rad21 genomic binding sites in normal intestinal crypts (WT) and Apc Min/+ adenomas
Contributor(s) Xu H, Ramsay RG
Citation(s) 25464844
Submission date Jul 10, 2014
Last update date May 15, 2019
Contact name Huiling Xu
Phone +61 3 9656 1274
Organization name Peter MacCallum Cancer Centre
Department Research Division
Lab Differentiation and transcription lab
Street address St Andrew Place
City East Melbourne
State/province Victoria
ZIP/Postal code 3002
Country Australia
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (22)
GSM1432719 WT 1
GSM1432720 WT 2
GSM1432721 WT 3
BioProject PRJNA254957
SRA SRP044220

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
GSE59283_Digital_Expression_Matrix_DSA_vs_Min.tabular.txt.gz 227.5 Kb (ftp)(http) TXT
GSE59283_Digital_Expression_Matrix_WT_vs_Rad21_het.tabular.txt.gz 212.9 Kb (ftp)(http) TXT
GSE59283_Digital_Expression_Min_vs_DHS_Matrix_My_Matrix.tabular.txt.gz 207.9 Kb (ftp)(http) TXT
GSE59283_EdgeR_Norm_Expr_Matrix_for_Digital_Expression_Matrix_RNA_SEQ.tabular.txt.gz 832.5 Kb (ftp)(http) TXT
GSE59283_RAW.tar 300.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap