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Series GSE100796 Query DataSets for GSE100796
Status Public on Jun 04, 2018
Title Human-specific features of special gene expression and regulation in eight brain regions
Organisms Hylobates lar; Gorilla gorilla; Pan troglodytes; Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Despite the substantial efforts made to compile the molecular maps of the human brain, they do not fully inform us of the features unique to humans. Yet, identification of these features might help us to understand both the evolution and nature of the human cognitive traits. Here, we approached this question by analyzing gene expression and H3K27ac chromatin modification data collected in eight brain regions of humans, chimpanzees, gorillas, gibbon and macaques. Integrated analysis of these data revealed existence of 1,851 human-specific transcriptome differences affecting one or multiple brain regions, in contrast to 240 chimpanzee-specific ones. More than a half of these differences represented elevated expression in human hippocampus, while the rest affected microglial functions in neocortex. Analysis of predicted regulatory interactions driving these differences revealed role of transcription factors in species-specific transcriptome changes, while epigenetic modifications were linked to spatial expression differences conserved across species.
 
Overall design Transcriptome across eight brain regions (dorsolateral prefrontal cortex, ventrolateral prefrontal cortex, anterior cingulate cortex, premotor cortex, primary visual cortex, striatum, hippocampus, cerebellum) of humans, chimpanzees, gorillas and gibbon were measured using RNA-seq.
 
Contributor(s) Xu C, Li Q, Efimova O, He L, Tatsumoto S, Oishi T, Udono T, Yamaguchi K, Shigenobu S, Kakita A, Nawa H, Khaitovich P, Go Y
Citation(s) 29898898
Submission date Jul 05, 2017
Last update date May 15, 2019
Contact name Yasuhiro Go
E-mail(s) yasuhirogo@gmail.com
Organization name National Institutes of Natural Sciences
Department Department of Brain Sciences, Center for Novel Science Initiatives
Street address 38 Nishigonaka Myodaiji
City Okazaki
ZIP/Postal code 4448585
Country Japan
 
Platforms (7)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL16809 Illumina HiSeq 2000 (Pan troglodytes)
GPL18460 Illumina HiSeq 1500 (Homo sapiens)
Samples (107)
GSM2693413 Human_Hs5_DPFC
GSM2693414 Human_Hs5_VPFC
GSM2693415 Human_Hs5_PMC
Relations
BioProject PRJNA393104
SRA SRP111096

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

Supplementary file Size Download File type/resource
GSE100796_RPKM_all_sample.txt.gz 19.6 Mb (ftp)(http) TXT
GSE100796_normalized_count_all_sample.txt.gz 16.0 Mb (ftp)(http) TXT
GSE100796_raw_count_all_sample.txt.gz 3.2 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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