PXD000811

PXD000811 is an original dataset announced via ProteomeXchange.

Title	Mouse kidney glomerular extracellular matrix LC-MSMS
Description	Across the spectrum of human disease there are significant changes in the composition and organisation of extracellular matrix (ECM). Furthermore, disease severity can vary according to race and sex, yet mechanisms for these variations are unclear. Using the kidney glomerulus as a model system, we tested the hypothesis that genetic background and sex influence composition and organisation of ECM. We characterised ECM from healthy mice with different predisposition to glomerular disease using global microarray, discovery proteomics and electron microscopy. Transcriptomic and proteomic analyses revealed unique strain and sex dependent glomerular ECM signatures with novel ECM proteins, which relate to glomerular dysfunction with leakage of macromolecules into the glomerular filtrate. In addition, we found striking structural changes in basement membranes in disease-susceptible mice. These findings were not explained by mutations in known ECM or glomerular genes. Pathway analysis of merged transcriptomic and proteomic datasets identified potential ECM regulatory pathways involving inhibition of matrix metalloproteinases, LXR/RXR, NRF2, notch and CDK5. These pathways may therefore alter ECM and confer susceptibility to disease.
HostingRepository	PRIDE
AnnounceDate	2016-07-09
AnnouncementXML	Submission_2016-07-08_18:48:58.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000811
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	M Randles
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Mus musculus (house mouse); NCBI TaxID: 10090;
ModificationList	iodoacetic acid derivatized residue; monohydroxylated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2014-03-11 02:50:10	ID requested
⏵ 1	2016-07-08 18:49:00	announced

Randles MJ, Woolf AS, Huang JL, Byron A, Humphries JD, Price KL, Kolatsi-Joannou M, Collinson S, Denny T, Knight D, Mironov A, Starborg T, Korstanje R, Humphries MJ, Long DA, Lennon R, Genetic Background is a Key Determinant of Glomerular Extracellular Matrix Composition and Organization. J Am Soc Nephrol, 26(12):3021-34(2015) [pubmed]

submitter keyword: Mouse, kidney, glomerular, extracellular matrix, LC-MSMS

Rachel Lennon
contact affiliation	Wellcome Trust Centre for Cell-Matrix Research, Faculty of Life Sciences and Institute of Human Development, Faculty of Medical and Human Sciences, University of Manchester, Manchester, UK
contact email	Rachel.Lennon@Manchester.ac.uk
lab head
M Randles
contact affiliation	Faculty of Human and Medical Science
contact email	michael.randles@postgrad.manchester.ac.uk
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/2016/07/PXD000811

PRIDE project URI

• PRIDE
  1. PXD000811
     1. Label: PRIDE project
     2. Name: Mouse kidney glomerular extracellular matrix LC-MSMS