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Sample GSM2500329 Query DataSets for GSM2500329
Status Public on Aug 11, 2017
Title SX3024_ni_3
Sample type SRA
 
Source name whole animal,mixed population
Organism Caenorhabditis elegans
Characteristics strain: SX3024
infection: none
Growth protocol All strains were grown on NGM plates seeded with HB101 E coli
Extracted molecule polyA RNA
Extraction protocol Animals were crack frozen in liquid nitrogen and RNA was extracted with Trisure
Libraries were prepared with the NEBNext Poly(A) mRNA magnetic isolation module followed by the NEBNext Ultra RNA library Prep Kit for Illumina
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 1500
 
Data processing Alignments were to the C elegans WS236 coding sequences downloaded from wormbase using bowtie2 (version 2.1.0)
Counts were obtained from alignment files using Bedtools version 2.21.0
Normalized counts were obtained using DESeq running through R version 3.1.1
Genome_build: WS236
Supplementary_files_format_and_content: tab-delimited text files include normalised count numbers for each sample
 
Submission date Feb 22, 2017
Last update date May 15, 2019
Contact name Eric Alexander Miska
E-mail(s) [email protected]
Organization name University of Cambridge
Department Gurdon Institute
Street address Tennis Court Road
City Cambridge
ZIP/Postal code CB2 1QN
Country United Kingdom
 
Platform ID GPL18730
Series (2)
GSE95229 Role of STA-1 and SID-3 upon Orsay virus infection in C. elegans (RNA-Seq)
GSE95230 Role of STA-1 and SID-3 upon Orsay virus infection in C. elegans
Relations
BioSample SAMN06392931
SRA SRX2582967

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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