|
| Status |
Public on Sep 15, 2015 |
| Title |
MOCK-Small RNA |
| Sample type |
SRA |
| |
|
| Source name |
MOCK-Small RNA
|
| Organism |
Triticum aestivum |
| Characteristics |
tissue: leave
|
| Treatment protocol |
Mock or BYSMV infected
|
| Growth protocol |
Wheat in soil and room temperature
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol reagent and seperated 18- to 30- small RNA
NEBNext Multiplex Small RNA Library Preparation kit
|
| |
|
| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
GATCAG
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm8 whole genome using bowtie v0.12.2
All trimmed sequences in length of 18-30nt were aligned with BYSMV genome and allowed two-mismatched reads were used for all further analysis.
the small RNA that unmatched with BYSMV represent plant reads
Supplementary_files_format_and_content: small RNA sequences and their read numbers
|
| |
|
| Submission date |
Sep 19, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Xian-Bing Wang |
| E-mail(s) |
wangxbcau@gmail.com
|
| Phone |
861062733313
|
| Organization name |
China Agricultural University
|
| Street address |
Yuanmingyuan West Road
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
| |
|
| Platform ID |
GPL10467 |
| Series (1) |
| GSE61565 |
Characterization of the complete genome sequence of Barley yellow striate mosaic virus reveals an overprinted ancillary gene encoding a small hydrophobic protein |
|
| Relations |
| BioSample |
SAMN03074230 |
| SRA |
SRX706553 |
