|
Status |
Public on Feb 01, 2015 |
Title |
Globodera pallida Sample 15 |
Sample type |
SRA |
|
|
Source name |
Total RNA whole animal
|
Organism |
Globodera pallida |
Characteristics |
developmental stage: J2 blaxter clade: IV
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA extracted using Trisure (BioLine) or Trizol (Invitrogen) according to manufacturer's instructions Illumina Truseq small RNA according to manufacturer's instructions
|
|
|
Library strategy |
ncRNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
Instrument model |
Illumina MiSeq |
|
|
Description |
5' monophosphate only
|
Data processing |
Adapter trimming using Cutadapt v1 fastq to fasta conversion, selection for small RNAs of 15-33nt in length using custom Perl scripts using Perl v5.12.4 fasta collapsed using FastX toolkit fastx_collapser module Supplementary_files_format_and_content: sequence id + number of reads + sequence
|
|
|
Submission date |
Apr 09, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Peter Sarkies |
E-mail(s) |
psarkies@imperial.ac.uk
|
Organization name |
Imperial College London
|
Department |
MRC Clinical Sciences Centre
|
Street address |
Du Cane Road
|
City |
London |
ZIP/Postal code |
W12 0NN |
Country |
United Kingdom |
|
|
Platform ID |
GPL18546 |
Series (1) |
GSE56651 |
Small RNA sequencing study of the nematode phylum |
|
Relations |
BioSample |
SAMN02724859 |
SRA |
SRX514616 |