|
Status |
Public on May 17, 2016 |
Title |
ctrltumor_2 |
Sample type |
SRA |
|
|
Source name |
brain tumor
|
Organism |
Mus musculus |
Characteristics |
background strain: mixed C57Bl/6;129Sv;CD-1 tissue: brain tumor genotype: Pten lox/lox : P53lox/lox
|
Extracted molecule |
total RNA |
Extraction protocol |
RNAs were isolated from the brain tumor tissue of the control tumor mice and Olig2cKO tumor mice with trizol as recommended by the manufacturer.RNA-seq libraries were prepared using Illumina RNA-seq preparation Kit (Illumina) RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
RNA-seq reads were mapped using TopHat with default settings.(http://tophat.cbcb.umd.edu) TopHat output data were then analyzed by Cufflinks to (1) calculate FPKM values for known transcripts in mouse genome reference mm9; (2) test the changes of gene expression between Olig2cKO and control tumors.. Genome_build: All sequencing data were mapped to mm9 Supplementary_files_format_and_content: txt files of gene expression FPKM values
|
|
|
Submission date |
Jul 29, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Richard Lu |
Organization name |
Cincinnati Children's Hospital Medical Center
|
Department |
CBDI
|
Lab |
Lu Lab,T6.525
|
Street address |
3333 Burnet Ave
|
City |
Cincinnati |
State/province |
OH |
ZIP/Postal code |
45229 |
Country |
USA |
|
|
Platform ID |
GPL13112 |
Series (2) |
GSE71493 |
Gene expression profiling of retrovirus PDGFB induced Glioma in control and Olig2cKO tumor |
GSE80089 |
Gene expression profiling and genome-wide maps in PDGFB-induced glioma |
|
Relations |
BioSample |
SAMN03943678 |
SRA |
SRX1123500 |