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| Status |
Public on Feb 15, 2010 |
| Title |
Small RNA of the model grass Brachypodium distachyon |
| Organism |
Brachypodium distachyon |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
Deep sequencing of Brachypodium distachyon small RNA from panicles (flowers) was done to analyze the genome-wide distribution patterns of 1) total small RNA reads and loci, 2) 21 and 24 nucleotide repeat-normalized reads and 3) 21 and 24 nucleotide phased siRNA clusters relative to gene and transposable element density.
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| Overall design |
Small RNA were extracted from total RNA by size fractionation and converted to DNA amplicons by serial adaptor ligation to both ends followed by RT-PCR. DNA amplicons were sequenced using an Ilumina Genome Analyzer. Resulting sequences were computationally trimmed to remove 3' adaptor sequences.
Raw data for GSM506621 was not provided.
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| Contributor(s) |
Fahlgren N, Fox SE, Sullivan CM, Mockler TC, Carrington JC, Chapman EJ, May GD, Zhai J, Ganssmann M, Gurazada SG, German M, Meyers BC, Green PJ |
| Citation(s) |
20148030 |
| |
| Submission date |
Feb 04, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
James C Carrington |
| E-mail(s) |
jcarrington@danforthcenter.org
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| Phone |
314-587-1202
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| Organization name |
Donald Danforth Plant Science Center
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| Lab |
James C. Carrington
|
| Street address |
975 North Warson Road
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| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63132 |
| Country |
USA |
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| Platforms (1) |
| GPL10009 |
Illumina Genome Analyzer (Brachypodium distachyon) |
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| Samples (2) |
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| Relations |
| SRA |
SRP001895 |
| BioProject |
PRJNA125697 |
