|
Status |
Public on May 18, 2023 |
Title |
Cited2_KO2 |
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 |
SAMN28489027 |
SRA |
SRX15312145 |