|
| Status |
Public on Apr 10, 2024 |
| Title |
54401, pregnant |
| Sample type |
SRA |
| |
|
| Source name |
Endometrial cells from uterine body
|
| Organism |
Bos taurus |
| Characteristics |
cell type: Endometrial cells from uterine body
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen Rneasy Microkit with prior tissue homogenization using beads
NEBNext Ultra II Directional RNA Library Prep Kit and SPT Labtech mosquito LV liquid handling instrument
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Trimming with cutadapt (v.3.4); phred-like score <20 and reads <65 bases
Mapped with STAR package (v2.7.9) to ARS-UCD1.3
Mapped reads processed with HTSeq, samtools, and scripts to remove PCR duplicates and to count uniquely mapped reads
Read counts normalized by library size
Assembly: Bos taurus (ARS-UCD1.3)
Supplementary files format and content: Txt data file includes Gene ID in first column. Expression data in reads per million
|
| |
|
| Submission date |
Nov 20, 2023 |
| Last update date |
Apr 10, 2024 |
| Contact name |
Peter Hansen |
| Organization name |
University of Florida
|
| Department |
Department of Animal Sciences
|
| Street address |
2250 Shealy Drive
|
| City |
Gainesville |
| State/province |
Florida |
| ZIP/Postal code |
32611 |
| Country |
USA |
| |
|
| Platform ID |
GPL26012 |
| Series (1) |
| GSE248266 |
Machine learning analysis to identify endometrial transcriptomic biomarkers predictive of pregnancy success following artificial insemination in dairy cows |
|
| Relations |
| BioSample |
SAMN38335790 |
| SRA |
SRX22587470 |
