GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1524280 Query DataSets for GSM1524280
Status Public on Nov 21, 2014
Title E12.5 Digits RNAseq
Sample type SRA
Source name Total RNA from E12.5 mouse digits
Organism Mus musculus
Characteristics strain: B6CBAF1/J
Stage: E12.5
genotype: Digits
genotype: WT
Extracted molecule total RNA
Extraction protocol RNA was extracted from a genital tubercle at E15.5 or from a pair of E12.5 forelimb presumptive digits using QIAGEN RNeasy Plus Micro Kit after disruption and homogenization
After ribodepletion, total RNA was prepared using the TruSeq Stranded Total RNA Sample Preparation Kit (Illumina) by the Genomics Platform of the University of Geneva
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Data processing Mapping and RNA-seq analyses were done through HTSstation (David et al, 2014 PLoS ONE and
Reads were mapped to the mm9 (NCBIM37) Mouse genome assembly with bowtie version 2.1.0 with the parameters --end-to-end --sensitive -k 20
Genome_build: mm9
Supplementary_files_format_and_content: Density file (bigWig)
Submission date Oct 10, 2014
Last update date May 15, 2019
Contact name Nicolas Lonfat
Organization name EPFL - Ecole Polytechnique Fédérale de Lausanne
Department School of Life Sciences
Lab Laboratory of developmental genomics
Street address EPFL-SV-ISREC-UPDUB- Station 19
City Lausanne
ZIP/Postal code 1015
Country Switzerland
Platform ID GPL17021
Series (2)
GSE62268 Convergent evolution of complex regulatory landscapes and pleiotropy at Hox loci (RNA-seq)
GSE62269 Convergent evolution of complex regulatory landscapes and pleiotropy at Hox loci
BioSample SAMN03104582
SRA SRX731077

Supplementary file Size Download File type/resource 72.5 Mb (ftp)(http) BW 74.0 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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