|
| Status |
Public on Aug 01, 2020 |
| Title |
HSG-8_Ovarian granulosa cells |
| Sample type |
SRA |
| |
|
| Source name |
HSG-8_Ovarian granulosa cells
|
| Organism |
Capra hircus |
| Characteristics |
breed: Ji'ning grey goat
tissue: Ovarian granulosa cells
treatment: HSG
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Granulosa 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 |
| |
|
| Description |
The group information is prefixed with HSG-8 in the column of processed data file
|
| 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 16, 2019 |
| Last update date |
Aug 01, 2020 |
| Contact name |
Yong Zhao |
| E-mail(s) |
[email protected]
|
| 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) |
| GSE135897 |
Single-cell RNA-seq of the goat ovarian granulosa cells samples from high and low fertility groups |
|
| Relations |
| BioSample |
SAMN12587639 |
| SRA |
SRX6726928 |
