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Series GSE20195 Query DataSets for GSE20195
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
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.
 
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.
 
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 Jun 11, 2013
Contact name James C Carrington
E-mail 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
 
Platforms (1)
GPL10009 Illumina Genome Analyzer (Brachypodium distachyon)
Samples (2)
GSM506620 panicles_OSU
GSM506621 panicles_UD
Relations
SRA SRP001895
BioProject PRJNA125697

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE20195_RAW.tar 23.9 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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