GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM5884360 Query DataSets for GSM5884360
Status Public on Jan 25, 2024
Title LAN326A14_S8_L003
Sample type SRA
Source name Heart
Organism Mus musculus
Characteristics developmental stage: E13.5
genotype: Dp1TybDyrk1a+/+/-
Extracted molecule total RNA
Extraction protocol Hearts were dissected and snap frozen and kept at -80C. Samples were lysed (buffer RLT Qiagen RNeasy Minikit) and homogenised using a battery-operated pestle motor mixer followed by RNA extraction using Qiagen RNeasy Mini kit using the standard protocol.
cDNA library synthesis using KAPA mRNA HyperPrep Kit (Illumina) and libraries were sequenced on the Illumina HiSeq 2500 following manufacturer's protocols.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Description rescue
Data processing Read trimming and adaptor removal with Trimmomatic (v 0.36)
Read alignment with STAR ( v 2.5.2a) and gene quantification with RSEM( v 1.2.31)
Differential expression analysis DESeq2
Genome_build: GRCm38 Ensembl release 86
Supplementary_files_format_and_content: table of normalized counts per gene per sample obtained from DESeq
Submission date Feb 09, 2022
Last update date Jan 25, 2024
Contact name Victor Tybulewicz
Organization name Francis Crick Institute
Street address 1 Midland Road
City London
ZIP/Postal code NW1 1AT
Country United Kingdom
Platform ID GPL17021
Series (2)
GSE196445 Dyrk1a dosage effects on the transcriptome of embryonic hearts from the Dp1Tyb mouse model of Down syndrome using bulk RNAseq
GSE196447 Down Syndrome
BioSample SAMN25816629
SRA SRX14121175

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

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