|
| Status |
Public on Jul 16, 2019 |
| Title |
5293 GMP: 10 wk GMP, MLL-ENL (x2), No dox |
| Sample type |
SRA |
| |
|
| Source name |
bone marrow
|
| Organism |
Mus musculus |
| Characteristics |
tissue: bone marrow
age: 10 weeks
genotype: MLL-ENL
cell type: granulocyte-monocyte progenitor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNAeasy micro plus
Clontech SMRTr
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
fetal induction
|
| Data processing |
The resulting sequencing reads were demultiplexed by index with a custom Python demultiplexing script and further demultiplexed by barcode with a custom Perl demultiplexing script.
The RNA-Seq reads were then aligned to the Mus musculus Ensembl release 76 top-level assembly with STAR version 3.0.4.b.
Gene counts were derived from the number of uniquely aligned unambiguous reads by Subread:featureCount version 1.4.5.
Sailfish version 0.6.3. was used to produce isoform estimated counts.
Genome_build: Ensemble R76
Supplementary_files_format_and_content: tab-delimited text files include read count values for each Sample
|
| |
|
| Submission date |
Jan 24, 2019 |
| Last update date |
Jul 16, 2019 |
| Contact name |
Jeffery Magee |
| E-mail(s) |
magee_j@kids.wustl.edu
|
| Organization name |
Washington University School of Medicine
|
| Department |
Internal Medicine - Cardiovascular Division
|
| Street address |
660 S Euclid Ave.
|
| City |
St Louis |
| State/province |
Missouri |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL21493 |
| Series (1) |
| GSE125549 |
The efficiency of MLL-ENL driven leukemia initiation changes with age and peaks during neonatal development |
|
| Relations |
| BioSample |
SAMN10798041 |
| SRA |
SRX5286004 |
