|
| Status |
Public on Dec 01, 2018 |
| Title |
Mut1-ASXL2 |
| Sample type |
SRA |
| |
|
| Source name |
Lin-Kit+ bone marrow cells
|
| Organism |
Mus musculus |
| Characteristics |
genotype/variation: Mutant1 Asxl2 over-expression
batch: batch1
|
| Growth protocol |
Cells were grown in IMDM medium supplemented with 15% FBS and recombinant mouse IL3, IL6 and SCF
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
GFP+ cells were sorted, expanded and RNA was extracted using Qiagen Rneasy Kit
TruSeq sample preparation kit (Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Paired end fastq files were pseudoaligned to Ensemble v82 transcritps using kallisto (VN: 0.43.1)
Transcript level expression and estimated counts were summarized to gene level using tximport Bioconductor package.
Differential expression analysis was performed with DESeq2 bioconductor package.
Genome_build: mm10
Supplementary_files_format_and_content: Tab-delimited output files - abundance.tsv generated by kallisto
|
| |
|
| Submission date |
Nov 13, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Phillip H Koeffler |
| E-mail(s) |
phillip_koeffler@nuhs.edu.sg
|
| Organization name |
Cancer Science Institute
|
| Lab |
H. Phillip Koeffler's lab
|
| Street address |
14 Medical Drive
|
| City |
Singapore |
| ZIP/Postal code |
117599 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE106796 |
ASXL2 is recurrently mutated in t(8;21) AML and regulates hematopoietic development [RNA_Seq_Asxl2_mutant] |
| GSE106798 |
ASXL2 is recurrently mutated in t(8;21) AML and regulates hematopoietic development |
|
| Relations |
| BioSample |
SAMN08014264 |
| SRA |
SRX3384720 |
