PXD041991-1

PXD041991 is an original dataset announced via ProteomeXchange.

Title	"Time-resolved quantitative proteomic analysis of the developing otic vesicle reveals putative congenital hearing loss candidates and a novel role for Tgfbi
Description	A large number of congenital hearing loss cases have an unknown genetic etiology. So far, transcriptomic approaches have successfully identified many candidate regulators of otic development, little is known about the abundance of their protein products during the development of the inner eat. Herein we used a multiplexed quantitative mass spectrometry-based proteomic approach to determine temporal trends in protein abundances during inner ear (otic) development in Xenopus. Wild type Xenopus embryos were cultured to larval stages and their otic tissues were manually dissected at five stages that represent that represent key transitions in otic morphology. The samples were processed using a bottom-up proteomic workflow and analyzed using LC-MS3.The analysis revealed dynamic expression of proteins related to cytoskeletal regulation, integrin signaling, and the extracellular matrix as inner ear structures developed. We correlated the dynamically regulated proteins in our dataset with previously published putative downstream targets of syndromic hearing loss genes SIX1 and CHD7 to identify novel candidate genes for congenital hearing loss.
HostingRepository	PRIDE
AnnounceDate	2023-10-24
AnnouncementXML	Submission_2023-10-24_15:32:03.237.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD041991
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	PeterNemes
SpeciesList	scientific name: Xenopus laevis (African clawed frog); NCBI TaxID: 8355;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-05-04 16:26:00	ID requested
⏵ 1	2023-10-24 15:32:04	announced
2	2023-11-14 09:12:36	announced	2023-11-14: Updated project metadata.
3	2024-10-22 06:13:15	announced	2024-10-22: Updated project metadata.

10.6019/PXD041991;

Baxi AB, Nemes P, Moody SA, otic vesicle reveals putative congenital hearing loss candidates. iScience, 26(9):107665(2023) [pubmed]

submitter keyword: otic development, congenital hearing loss,Xenopus laevis, temporal, extracellular matrix

PeterNemes
contact affiliation	Associate Professor, Department of Chemistry and Biochemistry, University of Maryland, College Park
contact email	nemes@umd.edu
lab head
PeterNemes
contact affiliation	University of Maryland, College Park
contact email	nemes@umd.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/2023/10/PXD041991

PRIDE project URI

• PRIDE
  1. PXD041991
     1. Label: PRIDE project
     2. Name: "Time-resolved quantitative proteomic analysis of the developing otic vesicle reveals putative congenital hearing loss candidates and a novel role for Tgfbi