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Series GSE70497 Query DataSets for GSE70497
Status Public on Feb 02, 2016
Title Effect of Bmal1 post-natal knockout on liver gene expression: time-series
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Gene expression in the liver has been studied extensively in normal mice, but not in mice with circadian disruption. We use a tamoxifen-inducible Lox/Cre KO mouse strain with the most important clock gene knocked out, BMAL-1. The aim of this experiment was to study the effect of circadian disruption on gene expression in the liver by comparing conditional Bmal1 KO mice with WT mice using RNA-seq. All mice were housed under 12h:12h LD conditions with free access to food and water. Seven days after the last dose of tamoxifen, mice were kept under constant darkness for 36 h and then sacrificed. Four mice per genotype were sacrificed in darkness every 4h for 20h (6 time points). Illumina TruSeq RNA Sample Prep v2 was used for library construction and samples were sequenced on an Illumina HiSeq 2000. RNA-seq data were aligned by STAR, and data were normalized with a resampling strategy (
Overall design Time-series liver mRNA profiles of 4- to 6-month-old male wild type (WT) and Bmal1 knockout (KO) mice were generated by sequencing, four mice per genotype per timepoint, using Illumina HiSeq 2000.
Contributor(s) Yang G, Paschos GK, Grant GR, Grosser T, FitzGerald GA, Chen L
Citation(s) 26843191
Submission date Jul 02, 2015
Last update date May 15, 2019
Contact name Gregory Robert Grant
Phone 215-573-3736
Organization name University of Pennsylvania
Department Genetics
Lab ITMAT Bioinformatics
Street address 3400 Civic Center Blvd.
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (48)
GSM1787223 mouse ZT0_control_45
GSM1787224 mouse ZT0_control_48
GSM1787226 mouse ZT0_KO_41
BioProject PRJNA288820
SRA SRP060295

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Supplementary file Size Download File type/resource
GSE70497_FINAL_master_list_of_genes_counts_MIN.Guangrui_WT_v_KO_timecourse.txt.gz 1.8 Mb (ftp)(http) TXT
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