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Sample GSM2154781 Query DataSets for GSM2154781
Status Public on Dec 15, 2016
Title XX-WT rep2
Sample type SRA
 
Source name ovary
Organism Mus musculus
Characteristics tissue: ovary
strain: C57BL/6
genotype: XX Sox9flox/flox wildtype
developmental stage: E13.5
Growth protocol All animal work was performed under Monash Medical Centre Animal Ethics approval (MMCB/2012/23). Microdissected gonads were separated from mesonephros of E13.5 embryos, snap frozen and stored at −80°C.
Extracted molecule total RNA
Extraction protocol RNA was extracted using the RNeasy kit (QIAGEN GmbH, D-40725 Germany).
Libraries were generated using NuGEN Mondrian Technology, utilising SPIA amplification methodology (which specifically selects and linearly reverse transcribes nonribosomal RNA). 6pM of bar-coded libraries per lane were sequenced using the Illumina HiSeq1500. Paired-end RNA sequencing chemistry, using 150 nt read lengths, at 50 million reads per sample was performed.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 1500
 
Data processing Trimmomatic (version 0.30)
Tophat2 (version 2.0.8)
HTSeq-count (version 0.6.1p1)
voom' from ‘limma’ R package (version 3.24.0)
Genome_build: Mus_musculus.GRCm38.77
Supplementary_files_format_and_content: Voom output of all differentially expressed genes
 
Submission date May 16, 2016
Last update date May 15, 2019
Contact name Francis Poulat
E-mail(s) francis.poulat@igh.cnrs.fr
Phone (+33) 4 3435 9940
Organization name IGH CNRS-UM UMR9002
Department Genetic and Development
Street address 141 rue de la Cardonille
City Montpellier
ZIP/Postal code 34396
Country France
 
Platform ID GPL18480
Series (2)
GSE81489 In fetal testis, SOX9 acts on transcription and splicing of its targets genes through binding to genomic regions with conserved signatures [RNA-seq]
GSE81490 In fetal testis, SOX9 acts on transcription and splicing of its targets genes through binding to genomic regions with conserved signatures
Relations
BioSample SAMN05003697
SRA SRX1769365

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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