|
| Status |
Public on Aug 07, 2023 |
| Title |
WT_pollen_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
pollen
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
tissue: pollen
genotype: WT
|
| Growth protocol |
temp 22C, long day, 14 days old seedlings were grown on ½ MS plates, older plants were grown on soil
|
| Extracted molecule |
total RNA |
| Extraction protocol |
NEXTFLEX Small RNA-seq v3 Kit (PerkinElmer)
RNA was extracted with Trizol and using the Direct-zol kit (Zymo Research)
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
For small RNA studies, adapters were removed (cutadapt), reads were trimmed and size selected (cutadapt). Reads corresponding to miRNAs were selected using ‘mirnasoft’ package and counted, number of reads corresponding to TE-siRNA were obtained using bedtools package.
txt file containing a number of reads for a particular miRNA
Assembly: tair10
|
| |
|
| Submission date |
Jan 12, 2023 |
| Last update date |
Aug 07, 2023 |
| Contact name |
Jakub Jacek Dolata |
| E-mail(s) |
j.dolata@amu.edu.pl
|
| Organization name |
Adam Mickiewicz University
|
| Department |
Department of Gene Expression
|
| Street address |
Uniwersytetu Poznanskiego 6
|
| City |
Poznan |
| ZIP/Postal code |
61-614 |
| Country |
Poland |
| |
|
| Platform ID |
GPL19580 |
| Series (1) |
|
| Relations |
| BioSample |
SAMN32532919 |
| SRA |
SRX18904998 |
