|
| Status |
Public on Aug 13, 2020 |
| Title |
Lv3NC-2 |
| Sample type |
SRA |
| |
|
| Source name |
Lv3NC-2_goatmg
|
| Organism |
Capra aegagrus |
| Characteristics |
breed: Lanshan dairy goat
tissue: mammary gland
treatment: Lv3NC
molecule subtype: small RNA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
goat mamamary gland cells were isolated for small RNA. Then small RNA samples were sequenced.
small RNA was used for the library.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
The group information is prefixed with Lv3NC_2 in the column of processed data file
|
| Data processing |
The 50nt sequence tags from HiSeq sequencing went through the data cleaning first,
which included getting rid of the low quality tags and several kinds of contaminants from the
50nt tags. Length distribution of clean tags was then summarized. Afterwards, the standard
bioinformatics analysis was used to annotate the clean tags into different categories and to take
those which cannot be annotated to any category to predict the novel miRNA and base edit of potential known miRNA
Genome_build: ARS1
|
| |
|
| Submission date |
Aug 13, 2019 |
| Last update date |
Aug 13, 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 |
GPL27051 |
| Series (1) |
| GSE135793 |
small RNA sequencing of goat mamamary gland cells samples from different treatment groups |
|
| Relations |
| BioSample |
SAMN12567579 |
| SRA |
SRX6709573 |
