PXD001765

PXD001765 is an original dataset announced via ProteomeXchange.

Title	Time and compartment resolved proteome profiling of the extracellular niche in lung injury and repair
Description	The extracellular niche is a key regulator of tissue morphogenesis and repair, however, its composition is currently not well characterized. Quantitative mass spectrometry resolved the dynamics of 8366 proteins from total tissue and bronchioalveolar lavage fluid in the consecutive phases of repair upon bleomycin induced lung injury. Joint analysis of proteome and transcriptome revealed posttranscriptional events during tissue remodeling. We developed a quantitative detergent solubility profiling method (QDSP), which enabled comprehensive characterization of the extracellular matrix and its interactions with secreted proteins, and showed the drastically altered association of morphogens, such as basement membrane netrins, to the insoluble matrix upon injury. We discovered several ECM proteins, including Emilin-2 and Collagen-XXVIII, as constituents of the provisional repair matrix. Our space and time resolved proteomics identified a host of tissue repair factor candidates with potential to promote the early events of progenitor cell mobilization or late events of repair pathways including the resolution of fibrosis.
HostingRepository	PRIDE
AnnounceDate	2015-07-22
AnnouncementXML	Submission_2015-07-21_22:07:51.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Herbert Schiller
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	iodoacetamide derivatized residue; monohydroxylated proline
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-01-29 08:37:51	ID requested
⏵ 1	2015-07-21 22:07:53	announced

Schiller HB, Fernandez IE, Burgstaller G, Schaab C, Scheltema RA, Schwarzmayr T, Strom TM, Eickelberg O, Mann M, Time- and compartment-resolved proteome profiling of the extracellular niche in lung injury and repair. Mol Syst Biol, 11(7):819(2015) [pubmed]

curator keyword: Biomedical, Biological

submitter keyword: Regeneration, repair, fibrosis, matrisome, proteomics

Matthias Mann
contact affiliation	Max Planck Institute of Biochemistry Department for Proteomics and Signal Transduction
contact email	mmann@biochem.mpg.de
lab head
Herbert Schiller
contact affiliation	Department of Proteomics and Signal Transduction
contact email	hschille@biochem.mpg.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/2015/07/PXD001765

PRIDE project URI

• PRIDE
  1. PXD001765
     1. Label: PRIDE project
     2. Name: Time and compartment resolved proteome profiling of the extracellular niche in lung injury and repair