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Sample GSM2881412 Query DataSets for GSM2881412
Status Public on Nov 28, 2018
Title C57_D300_F2_2
Sample type SRA
Source name C57_D300_F2_CASA extracted sperm from cauda epididymis
Organism Mus musculus
Characteristics strain: C57BL/6J
prenatal exposure: second generation after prenatal exposure to DEHP
age: 14 weeks
tissue: sperm from cauda epididymis
Treatment protocol Prenatal exposure per os to 300 mg/kg/day of bis(2-ethylhexyl)phthalate (D300) or corn oil vehicle (CTL) was administered to pregnant mice during embryonic days 9th to 19th
Growth protocol animal core facility of Geneva University under conventional accommodation.
Extracted molecule total RNA
Extraction protocol TRIZOL
RiboZero, fragmentation, Pyrophosphatase, kinase, TruSeq small RNA
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Data processing Base-calling (HiSeq Control Software 2.2.58, RTA, CASAVA-1.8.2)
RA3 clipped and reads > 18 bp from Fastq files using fastx_clipper
mapping to mm10 using TopHat
differential analysis using CuffDiff
analysis using CummeRbund
genes.count_tracking.txt tracks the summed counts of transcripts sharing each gene_id
Genome_build: mm10
Submission date Dec 08, 2017
Last update date Nov 28, 2018
Contact name Ludwig Stenz
Phone +41223795036
Organization name University of Geneva
Department Department of Genetic Medecine and Development
Lab Giacobino
Street address Rue Michel-Servet 1
City Geneva
ZIP/Postal code CH-1211 Genève 4
Country Switzerland
Platform ID GPL17021
Series (1)
GSE107839 All-RNA-seq data used in "Genetic resistance to DEHP-induced transgenerational endocrine disruption"
BioSample SAMN08149851
SRA SRX3457280

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

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