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Sample GSM154622

Query DataSets for GSM154622

Status

Public on Mar 08, 2007

Title

piRNAs associated with Aubergine from Drosophila melanogaster ovaries

Sample type

SRA

Source name

Hannon lab, Cold Spring Harbor Labs

Organism

Drosophila melanogaster

Characteristics

small RNAs isolated from Aubergine immuno-precipitates, indicating the cloning frequency

Extracted molecule

total RNA

Extraction protocol

small RNA was isolated from Aubergine immunoprecipitates and size separated on a 15% denaturing polyacrylamid gel.

Library strategy

RIP-Seq

Library source

transcriptomic

Library selection

other

Instrument model

Illumina Genome Analyzer

Description

cDNA library was prepared according to standard small RNA cloning procedures (Pfeffer S. et al. 2005; Nat. Methods)

Data processing

library was sequenced at 454 Life Sciences and small RNA were extracted bioinformatically as the sequence flanked by the two cloning linkers.

Submission date

Jan 10, 2007

Last update date

May 28, 2014

Contact name

Julius Brennecke

E-mail(s)

brenneck@cshl.edu

Organization name

Cold Spring Harbor Labs

Lab

Greg Hannon

Street address

1 Bungtown Road

City

Cold Spring Harbor

State/province

ZIP/Postal code

11724

Country

USA

Platform ID

GPL9058

Series (1)

GSE6734

piRNA libraries from Drosophila melanogaster ovaries

Relations

BioSample

SAMN02195379

Data table header descriptions
SEQUENCE
COUNT	cloning frequency

Data table
SEQUENCE	COUNT
TACTAGAGTGCATTACTGATTTCTT	184
TTATTGTGCCACTGAGTCGACTAT	179
TACTAGAGTGCATTACTGATTTCTTT	139
GAGTAGTGCCAACATATTGTGCTCT	122
GAGTAGTGCCAACATATTGTGCTC	110
TGAATACCTCGGGTACGTCTGCTC	101
TATTCGCCAGTCAGAGAGCCACTTC	98
TACTAGAGTGCATTACTGATTTCT	95
TGACTGACTCATGTAGTGTGCACT	77
AATTACTCAGGTATGATCCAATTC	76
TACGCAGAGGCCTAAGTAAATAGTC	67
TAATTACCAGCGCTAACGATCCCTA	67
TGTAAAAGTGGTGCTTCATACGGT	61
TTAGATTGCCTCTCATTTTCTCTCC	53
TGACTGACTCGTGTAGTGTGCACT	52
TCCTCGATAGTATAGTGGTTAGTATCCC	49
TTAGATTGCCTCTCATTTTCTCTCCC	48
GAGTAGTGCCAACATATTGTGCTAA	47
TGTAAACGGTAGCTAATTCGAGCGG	44
TATTAGTATATTCTGTGCCGTTATC	43

Total number of rows: 8208

Table truncated, full table size 222 Kbytes.

Supplementary data files not provided