PXD002877

PXD002877 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Transcriptome and proteome derived networks reveal distinct and complementary gene relationships - additional phosphoproteomics data
Description	Co-expression networks and gene regulatory networks (GRNs) are emerging as important tools for predicting the functional roles of individual genes at a system-wide scale. To enable network reconstructions we built a large-scale gene expression atlas comprised of 62,547 mRNAs, 17,862 non-modified proteins, and 6,227 phosphoproteins harboring 31,595 phosphorylation sites quantified across maize development. There was little edge conservation in co-expression and GRNs reconstructed using transcriptome versus proteome data yet networks from either data type were enriched in ontological categories and effective in predicting known regulatory relationships. This integrated gene expression atlas provides a valuable community resource. The networks should facilitate plant biology research and they provide a conceptual framework for future systems biology studies highlighting the importance of studying gene regulation at several levels.
HostingRepository	MassIVE
AnnounceDate	2016-09-12
AnnouncementXML	Submission_2016-09-12_10:07:42.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	zhouxin shen
SpeciesList	scientific name: Zea mays; NCBI TaxID: 4577;
ModificationList	Phospho
Instrument	LTQ Velos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2015-09-08 10:24:10	ID requested
⏵ 1	2016-09-12 10:07:43	announced

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: gene regulatory network, Maize, phosphoproteomics, proteomics, RNA-seq, co-expression network

submitter keyword: gene regulatory network, Maize, phosphoproteomics, proteomics, RNA-seq, co-expression network

Contact List

Steven P. Briggs
lab head
zhouxin shen
contact affiliation	UCSD
contact email	z1shen@ucsd.edu
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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://massive.ucsd.edu/MSV000079303

MassIVE dataset URI

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://massive.ucsd.edu/MSV000079303