|
| Status |
Public on Aug 29, 2017 |
| Title |
ChR2 |
| Sample type |
SRA |
| |
|
| Source name |
SU-pcGBM2 primary tumor cells
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: primary cell mechanically dissociated from patient brain tumor
cell type: SU-pcGBM2 primary tumor cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isloated using Trizol reagent
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
We generate 179.62M reads (clusters) (passing filter) with one lane of 50bp paired-end read
libraries were then sequenced on Illumina HiSeq2500
Reads were mapped to whole genome HG19 (UCSC) using TopHat
For data analysis, we use Cufflinks for differential expression analysis.
Genome_build: hg19
Supplementary_files_format_and_content: cufflinks output
|
| |
|
| Submission date |
Oct 21, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Humsa Venkatesh |
| E-mail(s) |
humsav@stanford.edu
|
| Phone |
4084217437
|
| Organization name |
Stanford University
|
| Department |
Neurology
|
| Lab |
Michelle Monje
|
| Street address |
265 Campus Drive - Monje Lab
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE62563 |
Neuronal activity promotes glioma growth |
|
| Relations |
| BioSample |
SAMN03121932 |
| SRA |
SRX737205 |
