GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE143334 Query DataSets for GSE143334
Status Public on Aug 12, 2021
Title Genome-wide binding of Bmal1 and Clock in adult mouse skeletal muscle.
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The goal of this study was to define the binding sites of the core circadian factors, BMAL1 and CLOCK across the genome in adult mouse skeletal muscle. We found that mitochondrial inner-membrane genes were among the most enriched rhythmic genes via gene ontology analysis, and ChIP-Seq analysis corroborated the role of Clock and Bmal1 in targeting promoters of mitochondrial inner-membrane genes.
Overall design We collected mouse gastrocnemius muscles from 10 adult C57BL/6J male at 2hrs after lights on (ZT2). Nuclei were extracted and proteins fixed and we used antibodies to Bmal1 and Clock for Chromatin IP. There are two biological replicates for Bmal1, two biological replicates for Clock, one input sample for Bmal1, and one input sample for Clock. Libraries were prepared using NEBNext Ultra DNA library kit and the libraries were sequenced on HiSeq3000 Illumina system.

Each processed data was generated from both replicates and is linked to the corresponding rep1 sample records.
Contributor(s) Zhang X, Huo Z, Esser K, Zierath J, Gabriel B
Citation(s) 34669477
Submission date Jan 08, 2020
Last update date Nov 03, 2021
Contact name Karyn A Esser
Organization name University of Florida
Lab Esser's lab
Street address 1345 Center Drive
City Gainesville
State/province Florida
ZIP/Postal code 32610
Country USA
Platforms (1)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (6)
GSM4257269 Bmal1_bioRep1
GSM4257270 Bmal1_bioRep2
GSM4257271 Clock_bioRep1
BioProject PRJNA600047
SRA SRP240731

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE143334_ChIPSeq_Bmal1_Clock_file_GEO_08012021.xls.gz 25.0 Kb (ftp)(http) XLS
GSE143334_RAW.tar 3.7 Gb (http)(custom) TAR (of BIGWIG, TXT)
GSE143334_peaksAnnotGene_Bmal1.txt.gz 536.2 Kb (ftp)(http) TXT
GSE143334_peaksAnnotGene_Clock.txt.gz 1.7 Mb (ftp)(http) TXT
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