|
| Status |
Public on Feb 01, 2007 |
| Title |
Col-0, leaf tissue |
| Sample type |
other |
| |
|
| Source name |
Wild-type Col-0, leaf tissue
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
Wild-type Col-0, leaf tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Plants were grown under standard greenhouse conditions with supplemental light on a 16-hour photoperiod. Lead tissue was collected 4-6 hours into the light cycle. Total RNA was extracted using Trizol reagent and small RNA was fractionated on polyacrylamide gels.
|
| |
|
| Description |
Amplicons were prepared by 5’ and 3’ adaptor ligation and RT-PCR using small RNA fractions. Samples were sequenced in a multiplexed format in which the 5’ adaptor contained a “barcode” consisting of a four-nucleotide identifier sequence. Amplicons from three to six samples containing unique barcodes were combined and subjected to picoliter-scale pyrosequencing.
|
| Data processing |
Small RNA sequences were parsed from 454 sequencing data files and assigned to specific samples through identification of adaptor boundaries and barcode analysis, respectively. The value is the number of times each small RNA sequence was identified in each sample.
|
| |
|
| Submission date |
Jan 08, 2007 |
| Last update date |
Jan 09, 2007 |
| Contact name |
James C Carrington |
| E-mail(s) |
jcarrington@danforthcenter.org
|
| Phone |
314-587-1202
|
| Organization name |
Donald Danforth Plant Science Center
|
| Lab |
James C. Carrington
|
| Street address |
975 North Warson Road
|
| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63132 |
| Country |
USA |
| |
|
| Platform ID |
GPL4732 |
| Series (1) |
| GSE6682 |
Arabidopsis thaliana small RNAs sequences identified using high-throughput 454 sequencing technology |
|
