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Sample GSM405493

Query DataSets for GSM405493

Status

Public on Jul 01, 2009

Title

454 sequencing of small RNAs from irradiated planarians

Sample type

SRA

Source name

planarian

Organism

Schmidtea mediterranea

Characteristics

cell type: irradiated whole-body planarians

Extracted molecule

total RNA

Extraction protocol

total RNA, ~15-25 nt RNAs isolated using Novex 15% TBE-Urea gel (invitrogen)

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

size fractionation

Instrument model

454 GS FLX

Description

small RNAs

Data processing

These sequences are the output from the 454 Genome Sequencer FLX after base-calling was performed. No adapter sequences have been removed. 5' adapter sequence: CTGTAGG(C/T)(G/A)CCTGAAA. 3' adapter sequence: CTGTAGG(C/T)(G/A)CCTGAAA (identical). Adapters and intervening miRNA can also be in reverse complement orientation.

Submission date

May 19, 2009

Last update date

Jun 11, 2013

Contact name

Marc Riemer Friedlaender

E-mail(s)

friedlaender@mdc-berlin.de

Phone

004994062992

Organization name

MDC, Berlin-Buch

Lab

Rajewsky

Street address

Robert-Rössle-Str. 10

City

Berlin

State/province

Berlin

ZIP/Postal code

D-13125

Country

Germany

Platform ID

Series (1)

454 Life Sciences/Roche and Illumina sequencing of small RNAs from planarian samples

Relations

BioSample

Data table header descriptions
SEQUENCE
COUNT	number of times sequenced

Data table
SEQUENCE	COUNT
ATTGATGGTGCCTACAGCATCTGATCTGAGGTCGGGTCTCAGGTGCCTACGAT	2376
ATTGATGGTGCCTACAGATAATGAATGTCTACCCGGTGATCTCAGGTGCCTACGAT	1338
ATTGATGGTGCCTACAGGGACATCAAATTTGGCTGTGATCTCAGGTGCCTACGAT	1260
ATTGATGGTGCCTACAGCAAATCATCGCGTCAGATCTCAGGTGCCTACGAT	1215
ATTGATGGTGCCTACAGGCACTTTGGTAATTTAGCTTTACTCTCAGGTGCCTACGAT	1196
ATTGATGGTGCCTACAGTTTGGATCCCTACACGCTTCTCAGGTGCCTACGAT	1006
ATTGATGGTGCCTACAGCCGCTACACCATGGGACCTCTCAGGTGCCTACGAT	938
ATTGATGGTGCCTACAGTCACTATTGTTGAGAACGTTGGCCTCTCAGGTGCCTACGAT	840
ATTGATGGTGCCTACAGTGGAGGGGGCACCCGGATCTCAGGTGCCTACGAT	821
ATCGTAGGCACCTGAGACCCGACCTCAGATCAGATGCTGTAGGCACCATCAAT	795
ATCGTAGGCACCTGAGAGTAAAGCTAAATTACCAAAGTGCCTGTAGGCACCATCAAT	789
ATTGATGGTGCCTACAGAACCAAGTAGCATGCATCATCTCAGGTGCCTACGAT	773
ATCGTAGGCACCTGAGATCACAGCCAAATTTGATGTCCCTGTAGGCACCATCAAT	702
ATTGATGGTGCCTACAGTCATCTGATCTGAGGTCGGGTCTCAGGTGCCTACGAT	697
ATTGATGGTGCCTACAGGCTACTCAAAGAAAAGGCATCTCAGGTGCCTACGAT	684
ATCGTAGGCACCTGAGAAGCGTGTAGGGATCCAAACTGTAGGCACCATCAAT	670
ATCGTAGGCACCTGAGAGGTCCCATGGTGTAGCGGCTGTAGGCACCATCAAT	643
ATTGATGGTGCCTACAGGCAATATACAAATAAGCACATCTCAGGTGCCTACGAT	631
ATTGATGGTGCCTACAGTCGAATGTTACTCCCACCGATCTCAGGTGCCTACGAT	571
ATCGTAGGCACCTGAGATCACCGGGTAGACATTCATTATCTGTAGGCACCATCAAT	549

Total number of rows: 58414

Table truncated, full table size 3218 Kbytes.

Supplementary data files not provided

Processed data included within Sample table

Raw data not provided for this record

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