Dataset features

Specifications


Application: RNA-seq analysis, sRNA-seq analysis
Number of samples: 2
Release date: Sep 1 2012
Last update date: Jun 25 2014
Access: Public
Genes: PIWIL1
Dataset link sRNA profiling during Oxytricha conjugation

Experimental Protocol


We sequenced sRNAs from Contig22226.0 IES1+ strain backcrossed to wild-type parental strain at 19hr post-mixing, and found corresponding IES-containing sRNAs. As a control, wild-type cells do not produce such IES-containing sRNAs (see GSE35018). Total RNA from the backcrossing at 19hr were isolated with mirVana small RNA extraction kit (Ambion), and directly used for making Illumina sRNA libraries. Oxytricha total small RNA (sRNA) sequencing at 20 hr post conjugation shows that a class of 27 nt, 5'-U sRNAs dominates the sRNA population at 20 hr, and this class of sRNAs associate with Otiwi1 (see GSE35018 for Otiwi1-interacting sRNAs in Oxytricha). In addition, a much less abundant class of 21-22 nt sRNAs is present according to the length distribution.

Repositories


GEO

GSE40081

ArrayExpress

E-GEOD-40081

ENA

SRP014822

BioProject

PRJNA172748

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Contact


Wenwen Fang