Proteomic analysis of human vitreous humor.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:25097467", "kind": "science-record", "revision": 6, "content_hash": "sha256:0dc5c486957281d280f043ad60e6bca08b98a0287c53dee943952ef8507ad038", "created_at": "2026-11-01T15:40:05Z", "updated_at": "2026-11-01T21:19:50Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Proteomic analysis of human vitreous humor.", "doi": "10.1186/1559-0275-11-29", "pmid": "25097467", "authors": ["Krishna R Murthy", "Renu Goel", "Yashwanth Subbannayya", "Harrys Kc Jacob", "Praveen R Murthy", "Srikanth Srinivas Manda", "Arun H Patil", "Rakesh Sharma", "Nandini A Sahasrabuddhe", "Arun Parashar", "Bipin G Nair", "Venkatarangaiah Krishna", "Ts Keshava Prasad", "Harsha Gowda", "Akhilesh Pandey"], "journal": "Clinical proteomics", "year": 2014, "abstract": "BACKGROUND: The vitreous humor is a transparent, gelatinous mass whose main constituent is water. It plays an important role in providing metabolic nutrient requirements of the lens, coordinating eye growth and providing support to the retina. It is in close proximity to the retina and reflects many of the changes occurring in this tissue. The biochemical changes occurring in the vitreous could provide a better understanding about the pathophysiological processes that occur in vitreoretinopathy. In this study, we investigated the proteome of normal human vitreous humor using high resolution Fourier transform mass spectrometry.\nRESULTS: The vitreous humor was subjected to multiple fractionation techniques followed by LC-MS/MS analysis. We identified 1,205 proteins, 682 of which have not been described previously in the vitreous humor. Most proteins were localized to the extracellular space (24%), cytoplasm (20%) or plasma membrane (14%). Classification based on molecular function showed that 27% had catalytic activity, 10% structural activity, 10% binding activity, 4% cell and 4% transporter activity. Categorization for biological processes showed 28% participate in metabolism, 20% in cell communication and 13% in cell growth. The data have been deposited to the ProteomeXchange with identifier PXD000957.\nCONCLUSION: This large catalog of vitreous proteins should facilitate biomedical research into pathological conditions of the eye including diabetic retinopathy, retinal detachment and cataract.", "claims": [{"id": "claim-method", "statement": "Peptide identifications were filtered by setting 1% target false discovery rate (FDR).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:25097467", "locator": "sections[13] \"Data analysis\" paragraph 2", "quote": "Peptide identifications were filtered by setting 1% target false discovery rate (FDR)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The raw data obtained from vitreous proteome are submitted to public data repositories. The peptide identifications and MS/MS spectra are available on Human Proteinpedia [63], (https://www.humanproteinpedia.org) as accession number HuPA_00682. The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium [74] via the PRIDE partner repository with the dataset identifier PXD000957.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:25097467", "locator": "sections[14] \"Data availability\" paragraph 2", "quote": "The raw data obtained from vitreous proteome are submitted to public data repositories. The peptide identifications and MS/MS spectra are available on Human Proteinpedia [63], (https://www.humanproteinpedia.org) as accession number HuPA_00682. The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium [74] via the PRIDE partner repository with the dataset identifier PXD000957."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study identified 1,205 proteins, 682 of which had not previously been described in vitreous humor; no numerical result for the registered statistical-method target was reported.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:25097467", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "We identified 1,205 proteins, 682 of which have not been described previously in the vitreous humor."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The study identified 1,205 proteins, 682 of which had not previously been described in vitreous humor; no numerical result for the registered statistical-method target was reported.", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:25097467"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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The peptide identifications and MS/MS spectra are available on Human Proteinpedia [63], (https://www.humanproteinpedia.org) as accession number HuPA_00682. The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium [74] via the PRIDE partner repository with the dataset identifier PXD000957.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The raw data obtained from vitreous proteome are submitted to public data repositories. The peptide identifications and MS/MS spectra are available on Human Proteinpedia [63], (https://www.humanproteinpedia.org) as accession number HuPA_00682. 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RESULTS: The vitreous humor was subjected t", "ultiple fractionation techniques followed by LC-MS/MS analysis. We identified 1,205 proteins, 682"], "order_basis": "paper_text_order:0", "id": "assay:1"}]}