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Sample GSM1087138 Query DataSets for GSM1087138
Status Public on Sep 02, 2015
Title WT rep3
Sample type SRA
 
Source name E11.5 heart, WT
Organism Mus musculus
Characteristics strain: C57BL/6
developmental stage: E11.5
tissue: heart
Extracted molecule total RNA
Extraction protocol E11.5 embryonic hearts from the Nkx2-5 hypomorphic line were dissected and stored in RNAlater (Qiagen). After genotyping, 3 control and 3 hypomorphic samples were selected for total RNA extraction using Trizol and purified on RNeasy column (Qiagen).
Total RNA was converted to a library of template molecule suitable for high throughput DNA sequencing using Truseq kit (Illumina).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Basecalls performed using CASAVA version 1.4
RNA-seq reads were aligned to the mm9 genome assembly using Tophat.
Differential expressed genes were analysed using Avadis suite.
Genome_build: mm9
Supplementary_files_format_and_content: Avadis differential expression result file
 
Submission date Feb 22, 2013
Last update date May 15, 2019
Contact name Laurent Dupays
E-mail(s) laurent.dupays@crick.ac.uk
Organization name The Francis Crick Institute
Lab Mill Hill Laboratory
Street address The Ridgeway, Mill Hill
City London
ZIP/Postal code NW7 1AA
Country United Kingdom
 
Platform ID GPL13112
Series (2)
GSE44573 Next Generation Sequencing Analysis of Wild Type and Hypomorphic Nkx2-5 mutant heart Transcriptomes
GSE44576 Identification of NKX2-5 transcriptional targets in the mouse embryonic heart
Relations
SRA SRX244281
BioSample SAMN01924403

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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