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Sample GSM1835755 Query DataSets for GSM1835755
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

Supplementary file Size Download File type/resource
GSM1835755_ctrltumor_2.fpkm_tracking.gz 809.7 Kb (ftp)(http) FPKM_TRACKING
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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