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Series GSE62633 Query DataSets for GSE62633
Status Public on Dec 08, 2014
Title Transcription Factors GATA4 and HNF4A Control Distinct Aspects of Intestinal Homeostasis in Conjunction With the Transcription Factor CDX2
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary To determine whether the intestine-restricted transcription factor (TF) CDX2 functionally interacts with the endoderm-wide TF HNF4A, we crossed tissue-specific conditional Cdx2 and Hnf4a knockout mice to generate compound mutant mice.
We used RNA-sequencing to profile gene expression changes in compound mutant mice compared to control mice. The compound mutant mice had a significantly worse phenotype than either single mutant, and gene expression was significantly perturbed in compound mutants compared to control mice.
Overall design Total RNA isolated from control and compound mutant (Hnf4a-del;Cdx2-del) jejunal mouse intestinal epithelium was prepared for sequencing using the TruSeq RNA Sample Preparation Kit (Illumina) according to the manufacturer's instructions. 75-base-pair single-end reads were sequenced on an Illumina NextSeq 500 instrument. The data include 2 independent biological replicates per genotype.
Contributor(s) San Roman AK, Aronson BE, Krasinski SD, Shivdasani RA, Verzi MP
Citation(s) 25488664
Submission date Oct 22, 2014
Last update date May 15, 2019
Contact name Adrianna Katrina San Roman
Organization name Dana Farber Cancer Institute and Harvard Medical School
Department Medical Oncology
Street address 450 Brookline Ave
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (4)
GSM1530534 Control biological rep1
GSM1530535 Control biological rep2
GSM1530536 Hnf4a-/-;Cdx2-/- biological rep1
BioProject PRJNA264576
SRA SRP049189

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE62633_Differential_expression_table.txt.gz 855.5 Kb (ftp)(http) TXT
GSE62633_Normalized_expression_table.txt.gz 356.4 Kb (ftp)(http) TXT
GSE62633_RAW.tar 3.0 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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