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| 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
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| 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.
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| 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.
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| 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 |
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| Submission date |
Jul 05, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yasuhiro Go |
| E-mail(s) |
yasuhirogo@gmail.com
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| Organization name |
National Institutes of Natural Sciences
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| Department |
Department of Brain Sciences, Center for Novel Science Initiatives
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| Street address |
38 Nishigonaka Myodaiji
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| City |
Okazaki |
| ZIP/Postal code |
4448585 |
| Country |
Japan |
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| Platforms (7)
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| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL16809 |
Illumina HiSeq 2000 (Pan troglodytes) |
| GPL18460 |
Illumina HiSeq 1500 (Homo sapiens) |
| GPL21650 |
Illumina HiSeq 2000 (Gorilla gorilla) |
| GPL23655 |
Illumina HiSeq 1500 (Pan troglodytes) |
| GPL23656 |
Illumina HiSeq 4000 (Gorilla gorilla) |
| GPL23664 |
Illumina HiSeq 2000 (Hylobates lar) |
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| Samples (107)
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| Relations |
| BioProject |
PRJNA393104 |
| SRA |
SRP111096 |
| 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 |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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