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Sample GSM1143424 Query DataSets for GSM1143424
Status Public on Mar 25, 2014
Title RNAseq_E10.5_rep1
Sample type SRA
Source name whole organism, E10.5
Organism Mus musculus
Characteristics strain/background: CBA/Ca×C57Bl/10
developmental stage: E10.5
tissue: whole body
Treatment protocol No treatment. Normal embryonic development.
Growth protocol CBA/Ca×C57Bl/10 crosses. Embryos taken at 10.5dpc, taking the day in which the plug was found as 0.5dpc.
Extracted molecule total RNA
Extraction protocol TRI-reagent followed by chloroform extraction, phenol:chloroform:methyl-butanol (25:24:1) extraction and propanol precipitation.
RNA libraries were prepared for Illumina sequencing using the standard protocol.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description Replicate 1.
Data processing Mapping: reads were mapped to the mouse genome (mm9 assembly) using Tophat software (
Assigning reads to transcripts: total counts and RPKM for each transcript were calculated using the RSeQC package (v2.3.3,
Genome_build: MGSCv37
Supplementary_files_format_and_content: Plain text files with raw counts and RPKM values for each transcript.
Submission date May 16, 2013
Last update date May 15, 2019
Contact name Juan J. Tena
Organization name CABD/CSIC
Street address Univ. Pablo Olavide, Ctra. Utrera km1
City Sevilla
ZIP/Postal code 41013
Country Spain
Platform ID GPL13112
Series (1)
GSE47033 RNA-seq in whole mouse embryos at stage E10.5
BioSample SAMN02146467
SRA SRX278615

Supplementary file Size Download File type/resource
GSM1143424_RNAseq_E10.5_rep1.rpkm.gz 745.7 Kb (ftp)(http) RPKM
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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