|
| Status |
Public on Jun 06, 2017 |
| Title |
BCRABL_MINUS_SHP2_MINUS_REP_0 |
| 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
|
| |
|
| 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 |
SAMN07192993 |
| SRA |
SRX2882490 |
