PXD026250

PXD026250 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Data Independent Acquisition Mass Spectrometry of the Human Lens Enhances Spatiotemporal Measurement of Fiber Cell Aging
Description	Comparison of DIA and DDA of 18 year old human lens treated with solubility fraction. OC, Cortex; ON, Outer Nucleus; IN, Inner Nucleus. 3 technical replicates included. Full details available at biorxiv preprint https://doi.org/10.1101/2021.05.13.444062. Abstract: The ocular lens proteome undergoes post-translational and progressive degradation as fiber cells age. The oldest fiber cells and the proteins therein are present at birth and are retained through death. Transparency of the lens is maintained in part by the high abundance crystallin family proteins (up to 300 mg/mL), which establishes a high dynamic range of protein abundance. As a result, previous Data Dependent Analysis (DDA) measurements of the lens proteome are less equipped to identify the lowest abundance proteins. In an attempt to probe more deeply into the lens proteome, we measured the insoluble lens proteome of an 18-year-old human with DDA and newer Data Independent Analysis (DIA) methods. By applying library free DIA search methods, 4,564 protein groups, 48,474 peptides and 5,577 deamidation sites were detected: significantly outperforming the quantity of identifications in using DDA and Pan-Human DIA library searches. Finally, by segmenting the lens into multiple fiber cell-age related regions, we uncovered cell-age resolved changes in proteome composition and putative function.
HostingRepository	MassIVE
AnnounceDate	2021-10-27
AnnouncementXML	Submission_2021-10-27_15:56:50.218.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lee Cantrell
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Deamidated
Instrument	Orbitrap Exploris 480

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2021-05-25 06:26:26	ID requested
⏵ 1	2021-10-27 15:56:50	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: lens, aging, DIA, DDA, DIA-NN

submitter keyword: lens, aging, DIA, DDA, DIA-NN

Contact List

Lee Cantrell
contact affiliation	Vanderbilt University
contact email	lee.s.cantrell@vanderbilt.edu
lab head
Kevin Schey
contact affiliation	Vanderbilt University
contact email	k.schey@vanderbilt.edu
lab head
Lee Cantrell
contact affiliation	Vanderbilt University
contact email	lee.s.cantrell@vanderbilt.edu
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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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/MSV000087506/