|
Status |
Public on Jun 06, 2017 |
Title |
BCRABL_MINUS_SHP2_MINUS_REP_1 |
Sample type |
SRA |
|
|
Source name |
BCR-ABL NULL (-/-)/SHP2 NULL (-/-)_pre-B cells
|
Organism |
Mus musculus |
Characteristics |
genotype/variation: BCR-ABL NULL (-/-)/SHP2 NULL (-/-) cell type: pre-B cells
|
Extracted molecule |
polyA RNA |
Extraction protocol |
RNA (150 ng) from each sample was reverse-transcribed into cDNA using the Illumina TruSeq Stranded mRNA kit. cDNA libraries were size-indexed and validated using an Agilent Bioanalyzer, and concentrations were confirmed by qPCR. For the 16 samples, each of the 4 libraries (1 WT SHP2+/+, 1 WT SHP2-/-, 1 BCR-ABL1 SHP2+/+, and 1 BCR-ABL1 SHP2-/-) was loaded onto an Illumina cBot for cluster generation, and the flow cell was subjected to 100 cycles of paired-end sequencing on an Illumina HiSeq 2000.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
Alignment was performed with Bowtie, using default parameters. Gene expression levels were estimated using Cufflinks. Genome_build: mm10 (GRCm38) Supplementary_files_format_and_content: FPKM
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|
|
Submission date |
Jun 05, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Pamela Ohashi |
E-mail(s) |
pam.ohashi@uhnresearch.ca
|
Organization name |
Princess Margaret Cancer Centre
|
Lab |
Ohashi Lab
|
Street address |
610 University Ave
|
City |
Toronto |
State/province |
Ontario |
ZIP/Postal code |
M5G 2C1 |
Country |
Canada |
|
|
Platform ID |
GPL13112 |
Series (1) |
GSE99656 |
SHP2 Is Required for BCR-ABL1-Induced Hematologic Neoplasms |
|
Relations |
BioSample |
SAMN07192992 |
SRA |
SRX2882491 |