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Sample GSM319953

Query DataSets for GSM319953

Status

Public on Oct 01, 2008

Title

10 dpp MILI

Sample type

SRA

Source name

testes

Organism

Mus musculus

Characteristics

10 dpp Dnmt3L heterozygotes

Extracted molecule

total RNA

Extraction protocol

total RNA was size selected (24-33nt) or MILI and MIWI2 complexes were immunoprecipitated from extarct using specific polyclonal antibodies

Library strategy

RIP-Seq

Library source

transcriptomic

Library selection

other

Instrument model

Illumina Genome Analyzer

Description

MILI-associated small RNA isolated from testes of 10 dpp males (Dnmt3L heterozygous)

Data processing

sequential ligation of 3' and 5' linkers using T4 RNA ligase follwed by PCR amplification
small RNA
Reads were aligned to the reference genome allowing zero mismatches. Number of mapping in the genome and genomic annotation were extracted.

Submission date

Sep 11, 2008

Last update date

May 15, 2019

Contact name

Alexei Aravin

E-mail(s)

aravin@cshl.edu

Phone

516-367-8386

Organization name

Cold Soring Harbor Lab

Street address

1 Bungtown Rd

City

Cold Spring Harbor

State/province

ZIP/Postal code

11724

Country

USA

Platform ID

GPL9185

Series (1)

GSE12757

A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice

Relations

SRA

SRX003081

BioSample

SAMN02195748

Data table header descriptions
SEQUENCE
COUNT	number of times sequenced

Data table
SEQUENCE	COUNT
AAAAAAAAACAAGAATATGGAGGCTG	0
AAAAAAAAACAAGAGGTAAAGGTGCT	0
AAAAAAAAACAAGAGGTAAAGGTGCTT	0
AAAAAAAAACAAGAGGTAAAGGTGCTTT	0
AAAAAAAAACAAGGACTGGAGAAATG	0
AAAAAAAAACAATAAATGTGAGAGTGTG	0
AAAAAAAAACAATACAAGGACGGAAATC	0
AAAAAAAAACAGCAACGGGAAGGAGA	0
AAAAAAAAACCGTAATGTCAATAATA	0
AAAAAAAAACCTAGGATAGCAAAAAGTCTT	0
AAAAAAAAACCTGGGGCTGGTGAGAT	1
AAAAAAAAACGAAGCAAGGTGGCCAT	0
AAAAAAAAACGGGCTGGTGAGATGGC	0
AAAAAAAAACGTAAAATCTGAGTGTC	0
AAAAAAAAACTATGGGCGAAGGATAG	0
AAAAAAAAACTGCTTACAGAAGAGGG	0
AAAAAAAAACTGGGCTGGTGAGATGGC	1
AAAAAAAAACTGTGTGTGTAACTTGG	1
AAAAAAAAAGAAAACTGCTGCAGATTT	0
AAAAAAAAAGAAAAGAGGTCCCTA	0

Total number of rows: 5043644

Table truncated, full table size 146452 Kbytes.

Supplementary file	Size	Download	File type/resource
GSM319953_A44_fastq.txt.gz	63.9 Mb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data included within Sample table