|
| Status |
Public on Mar 01, 2018 |
| Title |
3ab Rep 2 |
| Sample type |
SRA |
| |
|
| Source name |
inflorescence
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
strain: Columbia (Col)
tissue: inflorescence
genotype: 3ab
|
| Treatment protocol |
none
|
| Growth protocol |
16 hour light; 8 hour dark; at 22 oC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Flower inflorescences were collected and total RNA was extracted by Trizol. Illumina TruSeq Small RNA Sample Prep Kits was used with 1 ug of total RNA for the construction of sequencing libraries.
Illumina small RNA library protocol
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
small RNA
|
| Data processing |
Illumina software used for basecalling.
Sequenced reads were trimmed for adaptor sequence then mapped to TAIR10 whole genome using bowtie bowtie -v 0 -S -a --best --strata
Genome_build: TAIR10
Supplementary_files_format_and_content: Space-delimited plain text files: the first column is for MicroRNA gene IDs and the second column for reads counts
|
| |
|
| Submission date |
Oct 24, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Chi Zhang |
| E-mail(s) |
czhang5@unl.edu
|
| Organization name |
University of Nebraska - Lincoln
|
| Street address |
1901 Vine Street
|
| City |
Lincoln |
| State/province |
NE |
| ZIP/Postal code |
68588 |
| Country |
USA |
| |
|
| Platform ID |
GPL19580 |
| Series (1) |
| GSE106110 |
The effect of MAC3 and MAC5A on small RNA accumulation |
|
| Relations |
| BioSample |
SAMN07830283 |
| SRA |
SRX3318012 |
