Dataset features

Specifications


Application: RNA-seq analysis, sRNA-seq analysis
Number of samples: 4
Release date: Sep 4 2014
Last update date: Aug 10 2016
Access: Public
Dataset link Epigenetic reprogramming and small RNA silencing of transposable elements in pollen.

Experimental Protocol


Mature pollen was collected from Columbia reference strain plants by vacuum filtration (Johnson-Brousseau and McCormick, 2004). DNA and RNA were isolated from a ddm1-2 plant in the Columbia reference background. Small RNAs of 19–28 nt were size selected by denaturing 15% PAGE, and cloned as in Brennecke et al. (2007). Additional details regarding the cloning of small RNAs are found in the Supplemental Data. The small RNA libraries were sequenced on Illumina 1G sequencer. The total number of sequences perfectly matching the Arabidopsis genome were as follows: WT inflorescence, 4,158,848 (2,286,133 unique); WT pollen, 1,034,665 (437,984 unique); ddm1 inflorescence, 4,098,772 (1,637,771 unique); and WT sperm, 760,651 (429,972 unique).

Repositories


GEO

GSE61028

ArrayExpress

E-GEOD-61028

ENA

SRP046256

BioProject

PRJNA260113

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Contact


Robert Martienssen
Robert A Martienssen