|
| Status |
Public on Oct 30, 2015 |
| Title |
Prox1 GFP minus |
| Sample type |
SRA |
| |
|
| Source name |
iPSC-derived neurons
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: iPSC-derived neurons
prox1gfp: minus
|
| Treatment protocol |
Lentiviral expression of Prox1-promoter-driven GFP.
|
| Growth protocol |
DG-like hippocampal iPSC-derived neurons cultured as described (Yu DX et al. Stem Cell Reports 2014).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
FACSorting into Trizol-LS; standard Trizol RNA extraction.
PolyA pulldown, stranded, according to Illumina protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Single-end, 50bp on HiSeq2500v3.
Processed data file: cpm.txt, column PROX1GFPPLUS
|
| Data processing |
Reads from all libraries were mapped to the human reference genome (GRCh37) using STAR version 2.3.0. The assignment of reads to gene regions was performed by htseq-count, version 0.5.4 p5. The raw counts are normalized to obtain cpm.
Genome_build: GRCh37
Supplementary_files_format_and_content: cpm.txt: tab-delimited text file containing normalized cpm (count per million) for each sample.
|
| |
|
| Submission date |
Aug 18, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Son Pham |
| E-mail(s) |
spham@salk.edu
|
| Organization name |
Salk Institute
|
| Department |
LOG
|
| Lab |
Gage
|
| Street address |
10010 N Torrey Pines Rd
|
| City |
San Diego |
| State/province |
California |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE58933 |
Hyper-excitability of Neurons generated from Patients with Bipolar Disorder |
|
| Relations |
| BioSample |
SAMN03999281 |
| SRA |
SRX1158333 |
