|
| Status |
Public on May 29, 2012 |
| Title |
horse4119_day34_CG_RNAseq |
| Sample type |
SRA |
| |
|
| Source name |
horse_embryonic day34_chorionic girdle
|
| Organism |
Equus caballus |
| Characteristics |
tissue: invasive trophoblast tissue of the chorionic girdle
developmental stage: embryonic day 34
gender: female
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The mRNA-seq libraries were made with 3 ug of starting total RNA samples using the mRNA-Seq 8-Sample Prep Kit (Illumina Inc., CA), following the Illumina protocol for mRNA sequencing sample preparation.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Description |
horse4119CG
|
| Data processing |
The reads were and aligned to the horse reference genome (UCSC version equCab2) using TopHat with a maximum of three mismatches. Genome-wide allelic expression ratios were quantified for each individual mule or hinny sample at informative SNP positions.
Genome Build:
horse4119CG_SNP_counts.txt: UCSC equCab2
|
| |
|
| Submission date |
Mar 07, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Andrew Clark |
| E-mail(s) |
ac347@cornell.edu
|
| Organization name |
Cornell University
|
| Street address |
227 Biotech Building
|
| City |
Ithaca |
| ZIP/Postal code |
14853 |
| Country |
USA |
| |
|
| Platform ID |
GPL15325 |
| Series (1) |
| GSE36352 |
Profiling of differential allelic expression in horse, donkey, mule, and hinny placental tissues. |
|
| Relations |
| SRA |
SRX128110 |
| BioSample |
SAMN00809365 |
