|
| Status |
Public on Feb 25, 2021 |
| Title |
Smc3het_Inhibitor_RNA_1 |
| Sample type |
SRA |
| |
|
| Source name |
murine BM
|
| Organism |
Mus musculus |
| Characteristics |
genotype: Smc3+/f
tissue: bone marrow
treatment: DOT1L inhibitor (EPZ-5676)
|
| Treatment protocol |
During passaing, cells were treated with 100uM DOT1L inhibitor (EPZ-5676) or vehicle (DMSO).
|
| Growth protocol |
Bone marrow was isolated from Smc3+/f or WT mice that were treated with pIpC to induced excision of one Smc3 allele. Cells were collected after one week in passage.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using Trizol.
RNA libraries were created following the NEBNext Ultra RNA Library Prep Kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Reads were aligned to mm10 using STAR, with default parameters on basepairtech.com
Cufflinks was used to estimate the transcript abundances
DESeq was used to identify differential gene expression
Genome_build: mm10
Supplementary_files_format_and_content: gtf files (output from cufflinks)
|
| |
|
| Submission date |
Nov 13, 2019 |
| Last update date |
Feb 25, 2021 |
| Contact name |
Katelyn Elizabeth Heimbruch |
| Organization name |
Medical College of Wisconsin
|
| Street address |
8727 Watertown Plank Road
|
| City |
Miwaukee |
| State/province |
Wisconsin |
| ZIP/Postal code |
53213 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE140359 |
DOT1L inhibitors block abnormal self-renewal induced by cohesin loss [RNA-seq] |
| GSE140361 |
DOT1L inhibitors block abnormal self-renewal induced by cohesin loss |
|
| Relations |
| BioSample |
SAMN13280809 |
| SRA |
SRX7135958 |
