|
| Status |
Public on May 18, 2023 |
| Title |
Cited2_KO1 |
| Sample type |
SRA |
| |
|
| Source name |
rat 18.5 uterine-placental interface
|
| Organism |
Rattus |
| Characteristics |
developmental stage: gestational day 18.5
genotype: Cited2 mutant
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Single cells were captured into droplets using 10x chromium device followed by preparation of single-cell cDNA libraries with the 10x protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The Cell Ranger Single-Cell Software Suite (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger) was used to perform sample demultiplexing, barcode processing, and single-cell 3' gene counting. The reads were aligned to the rn6 reference genome. BAM files produced by the 10x Genomics/Cell Ranger pipeline
Assembly: rn6
Supplementary files format and content: Genes.tsv, Barcodes.tsv, Matrix.mtx
|
| |
|
| Submission date |
May 17, 2022 |
| Last update date |
May 18, 2023 |
| Contact name |
Khursheed Iqbal |
| E-mail(s) |
kiqbal@kumc.edu
|
| Phone |
913 588 5690
|
| Organization name |
University of Kansas Medical Center
|
| Department |
Pathology
|
| Street address |
3901 Rainbow Blvd
|
| City |
Kansas City |
| State/province |
Kansas |
| ZIP/Postal code |
66160 |
| Country |
USA |
| |
|
| Platform ID |
GPL32253 |
| Series (2) |
| GSE202339 |
CITED2 is a conserved regulator of deep placentation |
| GSE203192 |
CITED2 is a conserved regulator of deep placentation (Rat III) |
|
| Relations |
| BioSample |
SAMN28489028 |
| SRA |
SRX15312144 |
