|
| Status |
Public on May 20, 2014 |
| Title |
SA NS |
| Sample type |
SRA |
| |
|
| Source name |
cell line
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: Non-silencing shRNA
cell line: SA
|
| Treatment protocol |
SA cells are infected with shRNA targeting SFRS9 or non-silencing control
|
| Growth protocol |
SA cells are grown in BEGM medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA were extracted using TriPure
library constructed following Illumina TruSeq Stranded mRNA Sample Prep guide.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Images were analyzed using OLB 1.9 and CASAVA_v1.8.2
TopHat v2.0.6 was used to map the sequences to human genome hg19
cuffdiff v2.0.1 was used to generate the differetially spliced isoforms.
Genome_build: hg19
Supplementary_files_format_and_content: cuffdiff fpmk results as txt format
|
| |
|
| Submission date |
May 20, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Michael R. Green |
| E-mail(s) |
michael.green@umassmed.edu
|
| Organization name |
University of Massachusetts Medical School
|
| Department |
Molecular, Cell and Cancer Biology
|
| Lab |
Michael R. Green
|
| Street address |
364 Plantation Street
|
| City |
Worcester |
| State/province |
MA |
| ZIP/Postal code |
01605 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE47095 |
A Large-Scale RNAi-Based Mouse Tumorigenesis Screen Identifies New Lung Cancer Tumor Suppressors that Repress FGFR Signaling |
|
| Relations |
| BioSample |
SAMN02147105 |
| SRA |
SRX283448 |
