PXD002194-2

PXD002194 is an original dataset announced via ProteomeXchange.

Title	The proteome of normal human iris, ciliary body, retinal pigment epithelium, and choroid
Description	The iris is a fine structure that controls the amount of light that enters the eye. The ciliary body controls the shape of the lens and produces aqueous humor. The retinal pigment epithelium and choroid (RPE/choroid) are essential in supporting the retina and absorbing light energy that enters the eye. Proteins were extracted from iris, ciliary body, and RPE/choroid tissues of eyes from five individuals and fractionated using SDS-PAGE. After in-gel digestion, peptides were analyzed using LC-MS/MS on an Orbitrap Elite mass spectrometer. In iris, ciliary body, and RPE/choroid, we identified 2,959, 2,867, and 2,755 non-redundant proteins with protein false positive rate <1%. There were 43 unambiguous protein isoforms identified in iris, ciliary body, and RPE/choroid. Four “missing proteins” were found in ciliary body. The MS proteome database of the human iris, ciliary body, and RPE/choroid may serve as a valuable resource for future investigations of the eye in health and disease. The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifier PXD001424.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:24:37.469.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Pingbo Zhang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2015-05-19 00:57:20	ID requested
1	2016-02-04 04:28:53	announced
⏵ 2	2024-10-22 04:24:38	announced	2024-10-22: Updated project metadata.

Zhang P, Kirby D, Dufresne C, Chen Y, Turner R, Ferri S, Edward DP, Van Eyk JE, Semba RD, Defining the proteome of human iris, ciliary body, retinal pigment epithelium, and choroid. Proteomics, 16(7):1146-53(2016) [pubmed]

10.1002/pmic.201500188;

ProteomeXchange project tag: Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

curator keyword: Biomedical

submitter keyword: Eye, Ciliary body, Choroid, Iris, Retinal Pigment Epithelium

Richard D. Semba
contact affiliation	Department of Ophthalmology, Johns Hopkins University School of Medicine
contact email	rdsemba@jhmi.edu
lab head
Pingbo Zhang
contact affiliation	Johns Hopkins University
contact email	pzhang7@jhmi.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/2016/02/PXD002194

PRIDE project URI

• PRIDE
  1. PXD002194
     1. Label: PRIDE project
     2. Name: The proteome of normal human iris, ciliary body, retinal pigment epithelium, and choroid