PXD011453-3

PXD011453 is an original dataset announced via ProteomeXchange.

Title	Kidney proteomics in the folic acid (FA) induced nephropathy mouse model
Description	Treatments for kidney fibrosis represent an urgent yet unmet clinical need. Effective therapies are limited due to not well understood molecular pathogenesis. We aimed at generating a comprehensive and integrated multi-omics data set (RNA/ microRNA transcriptomics and proteomics) of fibrotic kidneys which will be searchable through a user-friendly web application. Therefore, two commonly used mouse models were utilized: a reversible chemical-induced injury model (folic acid (FA) induced nephropathy) and an irreversible surgical-induced fibrosis model (unilateral ureteral obstruction (UUO)). RNA and small RNA sequencing as well as MS/MS with 10-plex tandem mass tags proteomics were performed with kidney samples from different time points over the course of fibrosis development. In summary, we present temporal and integrated multi-omics data from fibrotic mouse kidneys which are accessible through an interrogation tool to provide a searchable transcriptome and proteome for kidney fibrosis researcher.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:49:49.512.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Matthew Berberich
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2018-10-23 01:52:08	ID requested
1	2019-05-09 00:20:18	announced
2	2019-06-19 01:31:36	announced	Updated publication reference for PubMed record(s): 31201317.
⏵ 3	2024-10-22 04:49:50	announced	2024-10-22: Updated project metadata.

10.1038/s41597-019-0095-5;

Pavkovic M, Pantano L, Gerlach CV, Brutus S, Boswell SA, Everley RA, Shah JV, Sui SH, Vaidya VS, Multi omics analysis of fibrotic kidneys in two mouse models. Sci Data, 6(1):92(2019) [pubmed]

curator keyword: Biomedical

submitter keyword: CKD, fibrosis, mouse,Kidney

Vishal S. Vaidya, Ph.D.
contact affiliation	Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA Department of Medicine – Renal Division, Brigham and Women’s Hospital, Boston, MA
contact email	vvaidya@bwh.harvard.edu
lab head
Matthew Berberich
contact affiliation	Center for Protein Degradation/Dana-Farber Cancer Institute
contact email	matthew_berberich@dfci.harvard.edu
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/2019/05/PXD011453

PRIDE project URI

• PRIDE
  1. PXD011453
     1. Label: PRIDE project
     2. Name: Kidney proteomics in the folic acid (FA) induced nephropathy mouse model