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Series GSE17274 Query DataSets for GSE17274
Status Public on Dec 01, 2009
Title Sex-specific and lineage-specific alternative splicing in primates
Organisms Macaca mulatta; Pan troglodytes; Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Comparative studies of gene regulation suggest an important role for natural selection in shaping gene expression patterns within and between species. Most of these studies, however, estimated gene expression levels using microarray probes designed to hybridize to only a small proportion of each gene. Here we used recently-developed RNA sequencing protocols, which side-step this limitation, to assess intra- and inter-species variation in gene regulatory processes in considerably more detail than was previously possible. Specifically, we used RNAseq to study transcript levels in humans, chimpanzees, and rhesus macaques, using liver RNA samples from three males and three females from each species. Our approach allowed us to identify a large number of genes whose expression levels likely evolve under natural selection in primates. These include a subset of genes with conserved sexually dimorphic expression patterns across the three species, which we found to be enriched for genes involved in lipid metabolism. Our data also suggest that while alternative splicing is tightly regulated within and between species, sex-specific and lineage-specific changes in the expression of different splice forms are also frequent. Intriguingly, among genes in which a change in exon usage occurred exclusively in the human lineage, we found an enrichment of genes involved in anatomical structure and morphogenesis, raising the possibility that differences in the regulation of alternative splicing have been an important force in human evolution.

Keywords: Gene Regulation Study
Overall design Examination of gene expression levels in livers from three primate species (human, chimpanzee, and rhesus macaque), using 3 male and 3 female samples from each species.
Contributor(s) Blekhman R, Marioni JC, Zumbo P, Stephens M, Gilad Y
Citation(s) 20009012
Submission date Jul 23, 2009
Last update date May 15, 2019
Contact name Ran Blekhman
Organization name University of Chicago
Street address 920 E. 58th St.
City Chicago
State/province IL
ZIP/Postal code 60637
Country USA
Platforms (3)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
GPL9160 Illumina Genome Analyzer II (Macaca mulatta)
GPL9378 Illumina Genome Analyzer II (Pan troglodytes)
Samples (36)
GSM432598 Human female 1 rep1
GSM432599 Human female 1 rep2
GSM432600 Human female 2 rep1
SRA SRP001558
BioProject PRJNA119135

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Supplementary file Size Download File type/resource
GSE17274_ReadCountPerLane.txt.gz 639.8 Kb (ftp)(http) TXT
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Processed data are available on Series record
Raw data are available in SRA

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