|
| Status |
Public on Aug 01, 2020 |
| Title |
HLO-2 |
| Sample type |
SRA |
| |
|
| Source name |
HLO-2_oocyte
|
| Organism |
Capra hircus |
| Characteristics |
breed: Ji'ning grey goat
tissue: Oocyte
treatment: HLO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Goat oocyte cells samples were isolated for RNA. Then RNA samples were sequenced.
Total RNA was used for the library.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
The reads were mapped to reference gene using SOAPaligner (Version 2.20) with a maximum of two nucleotide mismatch allowed at the parameters of “-m 0 -x 1000 -s 40 -l 35 -v 3 -r 2”. The read number of each gene was transformed into RPKM (Reads Per Kilo bases per Million reads), and then differently expressed genes were identified by the DEGseq package using the MARS (MA-plot-based method with Random Sampling model) method. The threshold was set as FDR≤ 0.001 and an absolute value of log2Ratio≥1 to judge the significance of gene expression difference.
Genome_build: ARS1
|
| |
|
| Submission date |
Aug 19, 2019 |
| Last update date |
Aug 01, 2020 |
| Contact name |
Yong Zhao |
| E-mail(s) |
yzhao818@hotmail.com
|
| Phone |
86-18661613617
|
| Organization name |
Qingdao Agricultural University
|
| Department |
College of Life Sciences
|
| Lab |
B604
|
| Street address |
700 Changcheng Road
|
| City |
Qingdao |
| State/province |
Shandong |
| ZIP/Postal code |
266109 |
| Country |
China |
| |
|
| Platform ID |
GPL15473 |
| Series (1) |
| GSE136005 |
Single-cell RNA-seq of the goat oocytes samples from high fertility group (>three babys per birth) and low fertility group (< two babys per birth) |
|
| Relations |
| BioSample |
SAMN12602748 |
| SRA |
SRX6742931 |
