|
| Status |
Public on Sep 30, 2019 |
| Title |
Miz1 deltaPOZ CD4+ T cell Tumor 76952 |
| Sample type |
SRA |
| |
|
| Source name |
Spleen CD4+ T cell tumour
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: C57Bl6
genotype/variation: Miz1 deltaPOZ
tissue: Spleen CD4+ T cell tumour
mouse id number: 76952
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using a MagMax-96 Total RNA Isolation kit (Ambion) and quality-checked with a RNA 6000 Pico kit (Agilent).
RNA-Seq libraries were prepared from RNA extracts using the TruSeq Stranded mRNA kit from Illumina according to the manufacturer’s instructions and sequenced using the TruSeq PE Clusterkit v3-cBot-HS.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
mRNA
|
| Data processing |
RNA-Seq reads were aligned to mm10 using Tophat v2.0.10.
Reads were processed with Samtools.
For differential expression, countfiles were generated by mapping reads to Ensembl genes using HTSeq. Further analysis was carried out using the DESeq R package.
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: _HTSeqCount.txt: Tab-delimited text files containing counts on GRCm38 v77 Ensembl genes.
|
| |
|
| Submission date |
Sep 14, 2018 |
| Last update date |
Oct 01, 2019 |
| Contact name |
Möröy Tarik |
| E-mail(s) |
tarik.moroy@ircm.qc.ca
|
| Organization name |
Insititut de Recherches Cliniques
|
| Street address |
110 Pine avenue West
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H2W 1R7 |
| Country |
Canada |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE120001 |
Effect of Miz1 POZ domain deletion on expression profiles of B and T leukemia cells |
|
| Relations |
| BioSample |
SAMN10067113 |
| SRA |
SRX4692241 |
