PXD003392-1

PXD003392 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Tagless Analysis of Protein-Protein Interactions in Desufovibrio vulgaris.
Description	A quantitative tagless method that employs iTRAQ mass spectrometry to measure the co-purification of endogenous proteins through orthogonal chromatographic fractionation was employed to characterize protein-protein interactions in D.vulgaris. 5,273 fractions from a four step fractionation of a D. vulgaris protein extract were assayed, leading to the detection of 1,242 proteins. Shotgun LC MALDI utilized AB Sciex 4800 and 5800 mass spectrometers. ProteinPilot software was used for protein identification and relative quantitation. Pearson cross-correlation values were computed for each iTRAQ multiplex for both the SEC and separately the HIC dimensions. Interologs of protein pairs in the established benchmark protein-protein interaction sets are much more likely to have high maximum CC values in both the HIC and SEC dimensions than seen for all protein pairs or for negative protein pairs. We identified 200 high confidence D. vulgaris PPIs based on tagless co-purification and co-localization in the genome, 140 of which are not part of our D. vulgaris affinity purification-MS interactome.
HostingRepository	MassIVE
AnnounceDate	2016-04-21
AnnouncementXML	Submission_2016-04-21_12:41:51.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Witkowska
SpeciesList	scientific name: Desulfovibrio vulgaris str. Hildenborough; NCBI TaxID: 882;
ModificationList	No PTMs are included in the dataset
Instrument	4800 Proteomics Analyzer

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2016-01-02 13:45:50	ID requested
⏵ 1	2016-04-21 12:41:51	announced

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: Protein-protein interactions, tagless strategy, iTRAQ, LC MALDI TOF/TOF, Desulvofibrio

submitter keyword: Protein-protein interactions, tagless strategy, iTRAQ, LC MALDI TOF/TOF, Desulvofibrio

Contact List

Mark D. Biggin
lab head
Witkowska
contact affiliation	UCSF
contact email	h_ewa_witkowska@yahoo.com
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/MSV000079440

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/MSV000079440