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Sample GSM261958

Query DataSets for GSM261958

Status

Public on Mar 28, 2008

Title

oocytesmallRNA-24to30

Sample type

SRA

Source name

fully grown oocytes

Organism

Mus musculus

Characteristics

female 4-weeks old CD1 strain

Treatment protocol

Mice were injected with 5 IU of PMSG 48 hours prior to sacrifice

Extracted molecule

total RNA

Extraction protocol

Total RNA was isolated from fully grown oocytes with Trizol, then separated PAGE to obtain three size fractions (19-24/24-30/19-30 nt). Adapters for Solexa sequencing were ligated, then the ligated product amplified by RT-PCR. The PCR product is gel-purified for sequencing

Label

not applicable

Label protocol

not applicable

Library strategy

OTHER

Library source

transcriptomic

Library selection

other

Instrument model

Illumina Genome Analyzer

Description

24-30 nt fraction

Data processing

The 3' linker, CTGTAGGCACCATCAAT, was identified and stripped out of the raw reads using a smith-waterman based alignment algorithm.

Submission date

Feb 01, 2008

Last update date

May 15, 2019

Contact name

ravi Sachidanandam

E-mail(s)

sachidan@cshl.edu

Phone

516 367 8864

Fax

516 367 8389

URL

http://katahdin.cshl.org:9331

Organization name

Cold Spring Harbor Laboratory

Department

N/A

Lab

sachidanandam

Street address

1 bungtown road

City

Cold spring Harbor

State/province

ZIP/Postal code

11724

Country

USA

Platform ID

GPL9185

Series (1)

GSE10364

Small RNA profile in fully grown mammalian oocytes

Relations

SRA

SRX004028

BioSample

SAMN02195388

Data table header descriptions
SEQUENCE
COUNT	count

Data table
SEQUENCE	COUNT
AAAAAAAAACAAAAAAAAACAAAAAAAAACAAAAAA	1
AAAAAAAAACAAAAAAAAACAAAAAAAACAAAAAAA	1
AAAAAAAAACAAAAAAAAACAAAAAAAACCAAAAAA	1
AAAAAAAAACAAAAAAAAACAAAAAAACAAAAAAAA	2
AAAAAAAAACAAAAAAAAACAAAAACAAAAAACAAA	1
AAAAAAAAACAAAAAAAAACAAAACAAAACAAAAAA	1
AAAAAAAAACAAAAAAAACAAAACAAAAAACAAAAA	1
AAAAAAAAACAAAAAAAACAAACAAACAAAAAAAAA	1
AAAAAAAAACAAAAAAACAAAAAACAAAACAAAAA	1
AAAAAAAAACAAAAAACAAAAAAAAACAAAAAAAAA	1
AAAAAAAAACAAAAAACAAAAAAAAACAAAACAAAA	1
AAAAAAAAACAAAAAACAAAAAAAACAAACAAAAAA	1
AAAAAAAAACAAAAAACAAAAAACAAAAAACAACAA	1
AAAAAAAAACAAAAAACAAAAAACAAAAACCAAAAA	1
AAAAAAAAACAAAACAAAAAAACAAAAAAACAAAAA	1
AAAAAAAAACAAAACAAAAAACAAAAAACAAAAAAA	1
AAAAAAAAAGAAAAACAAAAAAAAGAAA	1
AAAAAAAAAGGAAAAAGAAAAAAAAG	1
AAAAAAAAATAGCTGGTGAATGGTGGT	1
AAAAAAAACAAAAAAAAACAAAAAAACAAAAAACAA	1

Total number of rows: 652490

Table truncated, full table size 22102 Kbytes.

Supplementary file	Size	Download	File type/resource
GSM261958.txt.gz	42.0 Mb	(ftp)(http)	TXT
SRA Run Selector
Processed data included within Sample table
Raw data are available in SRA