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Sample GSM3017547 Query DataSets for GSM3017547
Status Public on Oct 19, 2021
Title NU_FSU_Q2_all_RNAseq
Sample type SRA
 
Source name N2_1 day_Rotenone 100 nM
Organism Caenorhabditis elegans
Characteristics strain: N2
tissue: whole worm
age: 1 day
Sex: hermaphrodite
perturbation: Rotenone 100 nM
Extracted molecule total RNA
Extraction protocol Extraction was done as described in Baumgart et al. 2012. (PMID:22487494)
Library preparation was done using Illumina's TruSeq RNA Library Preparation Kit v2 following the manufacturer's instruction.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description Q2_TAGCTT_L005
Data processing Sequence information was extracted in FastQ format using bcl2fastq software 1.8.4 data processing step.
Reads were mapped using STAR (2.4.1d).
Reads per gene were counted using featureCounts (1.4.6-p4).
Counts were normalized to RPKM values as described in Mortazavi et al. (2008).
Genome_build: genome: WBcel235, and respective gene annotation (WBcel235.84)
Supplementary_files_format_and_content: The Excel files include raw counts (sample_counts.xls) and RPKM values (sample_rpkms.xls) of all genes for each sample.
 
Submission date Feb 20, 2018
Last update date Oct 19, 2021
Contact name JenAge Project
E-mail(s) geo-data@jenage.de
Organization name Leibniz Institute for Age Research - Fritz Lipmann Institute
Street address Beutenbergstr. 11
City Jena
ZIP/Postal code D-07745
Country Germany
 
Platform ID GPL18245
Series (1)
GSE110834 Sequencing of Caenorhabditis elegans at 5 different time point after Rotenone and DMSO treatment (mRNA)
Relations
BioSample SAMN08567538
SRA SRX3723324

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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