|
| Status |
Public on Jan 08, 2014 |
| Title |
BD HGB_15 |
| Sample type |
SRA |
| |
|
| Source name |
postmortem brain
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: dorsolateral prefrontal cortex
disease state: BD
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the dorsolateral prefrontal cortex (Brodmann area 46) of post-mortem brain tissue of 11 BD cases and 11 healthy controls
Illumina RNA sequencing protocol was followed
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1000 |
| |
|
| Description |
HGB11-22_geneLevel_HTSeqCountData.txt
HGB11-22_transcriptLevel_eXpressCountData.txt
|
| Data processing |
The raw data was mapped to human genome build 19 using Tophat
The counts of each gene from Ensemble were obtained using HTSeq and analyzed with DESeq
Transcript level analyses were performe using eXpress and DESeq was used to analyze this data. Ensemble.gtf file was used for this analysis.
HGB_5 was excluded in the processed data because it had a low RNA integrity number
Genome_build: n/a
Supplementary_files_format_and_content: abundance
|
| |
|
| Submission date |
Dec 11, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Nirmala Akula |
| E-mail(s) |
akulan@mail.nih.gov
|
| Organization name |
National Institute of Mental Health/National Institutes of Health
|
| Department |
Human Genetics Branch
|
| Street address |
Building 35, Room 1A-205
|
| City |
Bethesda |
| State/province |
Maryland |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL15433 |
| Series (1) |
| GSE53239 |
RNA-sequencing of the brain transcriptome implicates dysregulation of neuroplasticity, circadian rhythms, and GTPase binding in bipolar disorder |
|
| Relations |
| BioSample |
SAMN02441941 |
| SRA |
SRX390449 |
