|
| Status |
Public on May 31, 2022 |
| Title |
Knockout Rep 3 |
| Sample type |
SRA |
| |
|
| Source name |
Spleen
|
| Organism |
Mus musculus |
| Characteristics |
cell type: CD71+Ter119+ Splenocytes
strain: C57BL/6
age: 4 weeks
tissue: Spleen
genotype: Dhh-/-
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Splenocyte suspensions were prepared from 4 week old Wildtype (WT), Dhh heterozygous (Dhh+/-) and Dhh knockout (Dhh-/-) mice spleen. Cells were stained against Ter119 and CD71 and facs sorted to purify CD71+Ter119+ cells. RNA was extracted from this CD71+Ter119+ cells defined as erythroblast population II.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
KO3
|
| Data processing |
Base Calling was done using RTA v(2.4.1.1)
Alignment was done using TopHat v(2.0.7)
Peak Calling was performed using Picard
The Bioconductor package DESeq2 was used to generate normalised estimates of transcript abundance
Assembly: mm10
Supplementary files format and content: comma separated file including RPKM values for each Sample.
|
| |
|
| Submission date |
May 28, 2022 |
| Last update date |
May 31, 2022 |
| Contact name |
Tessa Crompton |
| Organization name |
UCL
|
| Department |
Immunobiology
|
| Street address |
30 Guilford Street
|
| City |
London |
| ZIP/Postal code |
WC1N 1EH |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE205034 |
Regulation of erythropoiesis in the spleen by Desert Hedgehog (Dhh) |
|
| Relations |
| BioSample |
SAMN28724677 |
| SRA |
SRX15488916 |
