NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2802526 Query DataSets for GSM2802526
Status Public on Oct 19, 2017
Title WT rep2 (RNA-Seq)
Sample type SRA
 
Source name whole organism
Organism Caenorhabditis elegans
Characteristics developmental stage: L4
genotype: wildtype N2
tissue: whole organism
Treatment protocol No special treatment
Growth protocol WT Caenorhabditis elegans (N2 Bristol) animals were cultured on OP50 bacteria at 25°C, and collected at the last larval stage (mid-L4 – 29 h time point). Standard worm synchronization methods were used.
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol and DNAse treated.
These samples were prepared for sequencing by rRNA depletion with Ribo-Zero rRNA Removal Mix – Gold (Illumina), and the TruSeq Stranded Total RNA Library Prep Kit (Illumina) according to the Low Sample Protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing Read counts were quantified using kallisto.
These were then aligned to C. elegans genome WS247.
Genome_build: WS247
Supplementary_files_format_and_content: Csv; Contains tpm values for each replicate
 
Submission date Oct 02, 2017
Last update date May 15, 2019
Contact name Amy Pasquinelli
E-mail(s) apasquinelli@ucsd.edu
Organization name University of California, San Diego
Department Biological Sciences
Lab Pasquinelli Lab
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
 
Platform ID GPL18245
Series (2)
GSE104500 RNA-Seq of L4 C. elegans
GSE104502 Short Poly(A) Tails are a Conserved Feature of Highly Expressed Genes
Relations
BioSample SAMN07730914
SRA SRX3237805

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap