PXD019159-1

PXD019159 is an original dataset announced via ProteomeXchange.

Title	Protein composition of the subretinal fluid suggest selective diffusion of vitreous proteins in retinal detachment
Description	Purpose: To study the proteome of the subretinal fluid (SRF) from rhegmatogenous retinal detachment (RRD) in search for novel markers for improved diagnosis and prognosis of RRD. Methods: Human undiluted SRF obtained during vitrectomy for primary RRD using a 41G needle (n = 24) was analyzed and compared to vitreous humor from 2-days post-mortem eyes (n = 20). Sample preparation underwent nanoflow liquid chromatography-tandem mass spectrometry (LC-MS/MS). Label-free quantification (LFQ) using MaxQuant was used to determine differential expressed proteins between SRF and vitreous humor. The intensity-based absolute quantification (iBAQ) was used to rank proteins according to their molar fractions within groups. Identification of proteins beyond the quantitative level was performed using the Mascot search engine. Results: The protein concentration of the control vitreous humor was lower and more consistent (1.2 ± 0.4 mg) than that of the SRF (17.9 ± 22 mg). The iBAQ analysis showed high resemblance between SRF and vitreous humor, except for crystallins solely identified in vitreous humor. The LFQ analysis found 37 protein misregulations between SRF and vitreous humor of which the blood coagulation pathway was found to be enriched using the PANTHER Classification System. Combined, the iBAQ, LFQ and Mascot analysis found an overlap only in chitinase-3-like protein 1 and galectin-3-binding protein unique to the SRF. Conclusions: The proteome of the SRF was highly represented by proteins involved in proteolysis. Such proteins can possibly serve as targets in modulating the effects of SRF in RD.
HostingRepository	PRIDE
AnnounceDate	2020-10-20
AnnouncementXML	Submission_2020-10-19_22:11:30.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ebbe Toftgaard Poulsen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-13 01:30:07	ID requested
⏵ 1	2020-10-19 22:11:31	announced
2	2024-10-22 05:13:48	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Subretinal fluid,Retinal detachment, Vitreous humor, Eye

Jan J. Enghild
contact affiliation	Department of Molecular Biology and Genetics, Aarhus University, Denmark
contact email	jje@mbg.au.dk
lab head
Ebbe Toftgaard Poulsen
contact affiliation	Department of Molecular Biology and Genetics
contact email	etp@mb.au.dk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD019159
     1. Label: PRIDE project
     2. Name: Protein composition of the subretinal fluid suggest selective diffusion of vitreous proteins in retinal detachment