|
| Status |
Public on May 28, 2020 |
| Title |
control B |
| Sample type |
SRA |
| |
|
| Source name |
megakaryocyte progenitor cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Lin- CD41+ CD200r3- bone marrow
strain: C57BL/6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Lin- CD41+ CD200r3- murine bone marrow cells were flow-sorted directly into Buffer RLT from Qiagen RNeasy Mini Kit, and RNA was isolated according to manufacturer’s protocol.
Libraries were prepared using Nugen Ovation RNA-Seq System V2 kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Trimmomatic-0.32: trim low-quality sequences
Bowtie2: read alignment to mm10
samtools: filter out low quality alignments
Differential gene expression determined by CuffdiffÂ
Genome_build: mm10
Supplementary_files_format_and_content: plain text documents containing averaged RPKM values and calculated differential expression between treatment and control
|
| |
|
| Submission date |
Feb 12, 2020 |
| Last update date |
May 28, 2020 |
| Contact name |
Scott Hiebert |
| Organization name |
Vanderbilt University
|
| Street address |
2220 Pierce Ave.
|
| City |
Nashville |
| State/province |
TN |
| ZIP/Postal code |
37232 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE145211 |
RNA-seq of murine megakaryocyte progenitor cells treated with LSD1 inhibitor INCB059872 |
|
| Relations |
| BioSample |
SAMN14089629 |
| SRA |
SRX7714579 |
