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Series GSE47817 Query DataSets for GSE47817
Status Public on Apr 30, 2014
Title Epigenetic and genetic changes during mouse hematopoietic stem cell aging [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary To investigate the global transcriptome changes in mouse hematopoietic stem cell aging, we performed high-throughput sequencing of Poly A+ RNA (RNA-Seq) from purified 4 month, and 24 month-old HSCs (SP-KSL-CD150+). With biological duplicates, more than 200 million reads in total for each age of HSC were obtained. Comparison of the young and old HSC transcriptomes revealed that 1,337 genes that were up-regulated, and 1,297 genes were down-regulated with HSC aging. The most highly represented upstream regulator was growth factor TGFB1, accounting for ~ 19% of differential gene expression in young versus old HSC (p-value = 1.96E-33). Gene ontology (GO) analyses indicated that up-regulated genes in 24mo HSCs are highly enriched in Regulation of Cell Adhesion, Regulation of Cell Proliferation and Ribosome, while down-regulated genes are enriched in DNA Base Excision Repair, DNA replication and Cell Cycle. RNA-seq also allowed us to examine alternative isoforms with aging including alternative splicing, promoter usage and pre-mRNA abundance.
Overall design Mouse hematopoietic stem cell mRNA profiles of 4 month and 24 month old WT mice were generated generated by deep sequencing, in duplicate, using Illumina Hiseq 2000
Contributor(s) Deqiang S
Citation(s) 24792119
Submission date Jun 11, 2013
Last update date May 15, 2019
Contact name deqiang sun
Phone (713) 677-7439
Organization name Texas A&M University
Street address 2121 W Holcombe Blvd
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (8)
GSM1160029 m04_hsc_l1 RNA-Seq
GSM1160030 m04_hsc_l2 RNA-Seq
GSM1160031 m04_hsc_l3 RNA-Seq
This SubSeries is part of SuperSeries:
GSE47819 Epigenetic and genetic changes during mouse hematopoietic stem cell aging
BioProject PRJNA208010
SRA SRP025153

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE47817_RAW.tar 9.1 Mb (http)(custom) TAR (of TSV)
GSE47817_deg.m04_hsc_vs_m24_hsc.txt.gz 3.6 Mb (ftp)(http) TXT
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Processed data provided as supplementary file
Processed data are available on Series record
Raw data are available in SRA

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