PXD002802

PXD002802 is an original dataset announced via ProteomeXchange.

Title	Uncovering hidden layers of cell cycle regulation through integrative multi-omic analysis
Description	Studying the complex relationship between transcription, translation and protein degradation is essential to our understanding of biological processes in health and disease. The limited correlations observed between mRNA and protein abundance suggest pervasive regulation of post-transcriptional steps and support the importance of profiling mRNA levels in parallel to protein synthesis and degradation rates. In this work, we applied an integrative multi-omic approach to study gene expression along the mammalian cell cycle by simultaneously analyzing mRNA levels, translation rates and protein abundance. Our analysis sheds new light on the significant contribution of both mRNA translation and protein degradation to the variance in protein expression. Furthermore, we find that translation regulation plays an important role at S-phase, while progression through mitosis is predominantly controlled by changes in either mRNA levels or protein stability. Specific molecular functions are found to be co-regulated and share similar patterns of mRNA, translation and protein expression along the cell cycle. Notably, these include genes and entire pathways not previously implicated in cell cycle progression, demonstrating the capacity of this approach to identify novel regulatory mechanisms beyond those revealed by traditional expression profiling. Through this three-level analysis, we characterize different mechanisms of gene expression, discover new cycling gene products and highlight the importance and utility of combining datasets generated using different techniques that monitor distinct steps of gene expression.
HostingRepository	PRIDE
AnnounceDate	2015-09-30
AnnouncementXML	Submission_2015-10-13_02:16:48.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tamar Geiger
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-08-27 01:47:06	ID requested
1	2015-09-30 04:33:19	announced
⏵ 2	2015-10-13 02:16:49	announced	Updated publication reference for PubMed record(s): 26439921.

Aviner R, Shenoy A, Elroy-Stein O, Geiger T, Uncovering Hidden Layers of Cell Cycle Regulation through Integrative Multi-omic Analysis. PLoS Genet, 11(10):e1005554(2015) [pubmed]

submitter keyword: cell cycle, protein expression, translatome, proteome

Dr.Tamar Geiger
contact affiliation	1. Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel 2. Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel
contact email	geiger@post.tau.ac.il
lab head
Tamar Geiger
contact affiliation	Tel Aviv University
contact email	geiger@tauex.tau.ac.il
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/2015/09/PXD002802

PRIDE project URI

• PRIDE
  1. PXD002802
     1. Label: PRIDE project
     2. Name: Uncovering hidden layers of cell cycle regulation through integrative multi-omic analysis