|
| Status |
Public on Aug 12, 2016 |
| Title |
chimpanzee-PFC-3978d [ptr13] |
| Sample type |
SRA |
| |
|
| Source name |
dissected chimpanzee post-mortem superior frontal gyrus
|
| Organism |
Pan troglodytes |
| Characteristics |
sample group: chimpanzee; non-human primate
gender: male
age: 3978 days
tissue: superior frontal gyrus of the brain
|
| Treatment protocol |
PFC dissections were made from the frontal part of the superior frontal gyrus.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Trizol® reagent (Invitrogen, Carlsbad, CA).
Sequencing libraries were prepared with TruSeq RNA Sample Preparation Kit (Illumina) according to manufacturer’s instruction.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
RNA-seq data from post-mortem superior frontal gyrus of a chimpanzee with age of 3978 days
|
| Data processing |
The raw sequencing reads were mapped to each species’ reference genome and the splice junctions using Bowtie, allowing up to three mismatches.
Only uniquely mapped reads were used to calculate the gene expression levels.
Gene expression levels were calculated using the read coverage normalized by gene length and the total number of reads mapped to genes in a sample.
Genome_build: human: hg19; chimpanzee: panTro3.
Supplementary_files_format_and_content: tab-delimited text file shows RPKM values of each gene in each sample.
|
| |
|
| Submission date |
Jul 10, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Xiling Liu |
| Organization name |
Partner Institute for Computational Biology
|
| Street address |
320 Yue Yang Road
|
| City |
Shanghai |
| ZIP/Postal code |
200031 |
| Country |
China |
| |
|
| Platform ID |
GPL16809 |
| Series (1) |
| GSE59288 |
Disruption of human-specific synaptogenesis program in autism [RNA-seq] |
|
| Relations |
| BioSample |
SAMN02906783 |
| SRA |
SRX648873 |
