|
Status |
Public on May 20, 2014 |
Title |
SA SFRS9 KD |
Sample type |
SRA |
|
|
Source name |
cell line
|
Organism |
Homo sapiens |
Characteristics |
treatment: SFRS9 knock down 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 |
SAMN02147104 |
SRA |
SRX283447 |