|
| Status |
Public on Jul 02, 2013 |
| Title |
WT |
| Sample type |
SRA |
| |
|
| Source name |
Col0
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col0
line: Col0
tissue: Flower
generation: -
|
| Growth protocol |
Arabidopsis thaliana floweres from plants grown on soil under continuous light conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with Trizol
Libraries construction was contracted out to Fasteris SA. At Fasteris SA, barcoded libraries were prepared such that four samples could be run per lane. Libraries were prepared according to Illumina's instructions accompanying the sequencing Kit TruSeq(TM) SBS v5.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
small RNAs
|
| Data processing |
Basecalls performed using HiSeq Control Soft. v. 1.4.8, RTA 1.12.4.2 and CASAVA 1.8.2
sRNAseq reads were aligned to the TAIR9 genome assembly using ncPRO pipeline after filtering out the reads of size lower than 19nt.
Genome_build: TAIR9
Supplementary_files_format_and_content: Sequence count for A. thaliana derived small RNAs
|
| |
|
| Submission date |
Jan 10, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Antonin Marchais |
| E-mail(s) |
mantonin@ethz.ch
|
| Phone |
+41 44 632 64 08
|
| Organization name |
ETHZ
|
| Department |
Department of Biology
|
| Lab |
Group Prof. Olivier Voinnet
|
| Street address |
Universitatstrasse 2
|
| City |
Zurich |
| ZIP/Postal code |
8092 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL13222 |
| Series (1) |
| GSE43412 |
Reconstructing de novo silencing of an active plant retrotransposon: dynamics, mechanisms, biological implications |
|
| Relations |
| SRA |
SRX216173 |
| BioSample |
SAMN01885409 |
