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Series GSE128537 Query DataSets for GSE128537
Status Public on Dec 30, 2019
Title Transcriptomic and open chromatin atlas of high-resolution anatomical regions in the rhesus macaque brain
Organism Macaca mulatta
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Rhesus macaque is a prime model animal in neuroscience. A comprehensive transcriptomic and open chromatin atlas of the rhesus macaque brain is key to a deeper understanding of the brain. Here we characterize the transcriptome of 416 brain samples from 52 regions of 8 rhesus macaque brain. We identify gene modules associated with specific brain regions like the cerebral cortex, pituitary, and thalamus. In addition, we discover 9703 novel intergenic transcripts, including 1701 coding transcripts and 2845 lncRNAs. Most of the novel transcripts are only expressed in specific brain regions or cortical regions of specific individuals. We further survey the open chromatin regions in the hippocampal CA1 and several cerebral cortical regions of the rhesus macaque brain using ATAC-seq, revealing CA1- and cortex-specific open chromatin regions. Our results add to the growing body of knowledge regarding the baseline transcriptomic and open chromatin profiles in the brain of rhesus macaque.
Overall design we characterized the transcriptome of 416 brain samples from 52 regions of 8 rhesus macaque brain
Contributor(s) Yin S, Lu K, Tang J
Citation(s) 31980617
Submission date Mar 19, 2019
Last update date Feb 03, 2020
Contact name keying Lu
Organization name Sichuan university
Department State Key Laboratory of Biotherapy
Street address Wuhou
City Chengdu
State/province Sichuan
ZIP/Postal code 610000
Country China
Platforms (2)
GPL21120 Illumina NextSeq 500 (Macaca mulatta)
GPL24522 HiSeq X Ten (Macaca mulatta)
Samples (449)
GSM3679175 2_1 RNA-seq
GSM3679176 2_2 RNA-seq
GSM3679177 2_3 RNA-seq
BioProject PRJNA528034
SRA SRP188855

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

Supplementary file Size Download File type/resource
GSE128537_RAW.tar 18.2 Gb (http)(custom) TAR (of BW)
GSE128537_Rhesus_RNA_gene_count.txt.gz 10.9 Mb (ftp)(http) TXT
GSE128537_assembly.gtf.gz 4.5 Mb (ftp)(http) GTF
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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