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Sample GSM3604518 Query DataSets for GSM3604518
Status Public on Jun 16, 2019
Title hepaCON_rep1 [RNA-seq]
Sample type SRA
Source name hepa_CON
Organism Mus musculus
Characteristics strain: Wild-type black6 mice
cell type: cultured mouse primary hepatocytes
Extracted molecule total RNA
Extraction protocol RNA was extracted from cultured cells or tissue with Trizol/chloroform and cleaned up with Rneasy mini columns (Qiagen)
Libraries were constructed using NEBNext Ultra Directional RNA Library Prep Kit
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina MiSeq
Description hepaCONrep1
processed data file:
Data processing FASTQ files were aligned against the mouse mm10 or rat rn6 genome builds using Tophat v2.0.9 or STAR
For differential expression analysis, raw read count tables of two biological replicates from control and FSK treated material were generated using Homer( with option –raw). Differential expression and adjusted p-values for significance calculated with Homer ( using DESeq2)
Genome_build: mm10 or rn6
Submission date Feb 14, 2019
Last update date Jun 16, 2019
Contact name Sam Van de Velde
Organization name Salk Institute
Department PBL
Street address 10010 North Torrey Pines Road
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
Platform ID GPL16417
Series (2)
GSE126557 CREB mediates transient and sustained genomic responses to cAMP via distinct mechanisms [RNA-seq]
GSE126558 CREB mediates transient and sustained genomic responses to cAMP via distinct mechanisms
BioSample SAMN10935158
SRA SRX5375076

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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