PXD062751

PXD062751 is an original dataset announced via ProteomeXchange.

Title	Characterization of Transcriptionally Active Clock Complexes in Time and Space Using Quantitative Proteomics
Description	Circadian gene expression in mammals relies on the oscillatory activity of the BMAL1/CLOCK transcription factor complex, rhythmically binds to DNA. Despite the conserved presence of BMAL1/CLOCK in all tissues, circadian transcriptional outputs minimally overlap between tissues. We therefore hypothesize that BMAL1/CLOCK interact with tissue and time-dependent regulators at the chromatin generating an environment that determines tissue-specific gene expression. To investigate this, we combined chromatin immunoprecipitation with mass spectrometry-based quantitative proteomics (ChIP-MS) to characterize chromatin-bound BMAL1/CLOCK protein complexes at the transcriptional active phase (ZT4, ZT7, ZT10), in mouse tissues (Liver, Kidney, Lung). Together we produced and analyzed 108 pulldowns using BMAL1 and CLOCK specific antibodies. This large scale study yield a two dimensional (time & space) interaction map identifying known and unknown BMAL1/CLOCK interacting core proteins consistently present and time & tissue-specific complex constituents.
HostingRepository	PRIDE
AnnounceDate	2026-06-24
AnnouncementXML	Submission_2026-06-24_12:12:01.625.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Fatih Aygenli
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-04-08 15:46:47	ID requested
⏵ 1	2026-06-24 12:12:02	announced

Dataset with its publication pending

submitter keyword: proteomics,ChIP-MS, circadian clock, transcription factors

Maria Robles
contact affiliation	System Chronobiology, Institute for Medical Psychology, Ludwig-Maximilians Universitat Muenchen, Germany
contact email	charo.robles@med.uni-muenchen.de
lab head
Fatih Aygenli
contact affiliation	LMU - Muenchen
contact email	fatih.aygenli@med.uni-muenchen.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD062751

PRIDE project URI

• PRIDE
  1. PXD062751
     1. Label: PRIDE project
     2. Name: Characterization of Transcriptionally Active Clock Complexes in Time and Space Using Quantitative Proteomics