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of Pittsburgh"],"cell_type":["Not available"],"repository":["GPMDB"],"pubmed_abstract":["Basement membranes (BMs) are extracellular matrix sheets comprising the laminins, type-IV collagens, nidogens, and the heparan sulfate proteoglycans, perlecan, collagen XVIII, and agrin. In intact BMs, BM proteins are physiologically insoluble and partially resistant to proteolytic digestion, making BMs a challenge to study. Here three types of BMs from adult human eyes, the inner limiting membrane (ILM), the retinal vascular BMs, and the lens capsule, were isolated for analysis by 1D-SDS-PAGE and LC-MS/MS. Peptide and protein identifications were done using MaxQuant. 1129 proteins were identified with a 1% false discovery rate. Data showed that BMs are composed of multiple laminins, collagen IVs, nidogens, and proteoglycans. The dominant laminin family member in all BMs was laminin α5β2γ1. The dominant collagen IV trimer in lens capsule (LC) and blood vessel (BV) BMs had a chain composition of α1(IV)2, α2 (IV), whereas the dominant collagen IV in the ILM had the α3(IV), α4(IV), α5(IV) chain composition. The data also showed that the ratio of laminin and collagen IVs varied among different BM types: the ratio of collagen IV to the other BM proteins is highest in LC, followed by BV and lowest for the ILM. The data have been deposited to the ProteomeXchange with identifier PXD001025.","Basement membranes (BMs) are extracellular matrix sheets comprising the laminins, type-IV collagens, nidogens, and the heparan sulfate proteoglycans, perlecan, collagen XVIII, and agrin. In intact BMs, BM proteins are physiologically insoluble and partially resistant to proteolytic digestion, making BMs a challenge to study. Here three types of BMs from adult human eyes, the inner limiting membrane (ILM), the retinal vascular BMs, and the lens capsule, were isolated for analysis by 1D-SDS-PAGE and LC-MS/MS. Peptide and protein identifications were done using MaxQuant. 1129 proteins were identified with a 1% false discovery rate. Data showed that BMs are composed of multiple laminins, collagen IVs, nidogens, and proteoglycans. The dominant laminin family member in all BMs was laminin α5β2γ1. The dominant collagen IV trimer in lens capsule (LC) and blood vessel (BV) BMs had a chain composition of α1(IV)<sub>2</sub>, α2 (IV), whereas the dominant collagen IV in the ILM had the α3(IV), α4(IV), α5(IV) chain composition. The data also showed that the ratio of laminin and collagen IVs varied among different BM types: the ratio of collagen IV to the other BM proteins is highest in LC, followed by BV and lowest for the ILM. The data have been deposited to the ProteomeXchange with identifier PXD001025."],"pubmed_title":["Proteomic View of Basement Membranes from Human Retinal Blood Vessels, Inner Limiting Membranes, and Lens Capsules."],"pubmed_authors":["Uechi Guy G,Sun Zhiyuan Z,Schreiber Emanuel M EM,Halfter Willi W,Balasubramani Manimalha M,","Uechi Guy G, Sun Zhiyuan Z, Schreiber Emanuel M EM, Halfter Willi W, Balasubramani Manimalha M"],"name_synonyms":["set of retinal blood vessels, Basement, vasa sanguinea retinae, lens capsule, human being, Basement Laminas, ILM, inner limiting membrane, Basement Lamina, inner limiting membranes, Homo sapiense, Laminas, lens crystallina, lenses, Homo spaiens, retinal blood vessels, retina vasculature, Homo sapien, Homo sapian, Homo sapians, Basal Laminas, camera-type eye lens, retina inner limiting membrane, Basement Membranes, Homo sapeins, internal limiting membrane of retina, internal limiting lamina of retina, retinal vasculature, retinal blood vessels set, Membranes, Homo sapients, inner limiting membrane of retina, lens, Basal, ocular lens, Humo sapiens, crystalline lens, Membrane, man, Homo sapines, stratum limitans internum retinae, human, Microcapsules., Lamina, Basal Lamina, Homo spiens, \"human\" EXACT genbank_common_name [], Entire lens, Homo sapience, retina internal limiting lamina, Homo sampiens, set of blood vessels of retina, retina vasculature of camera-type eye, Home sapiens, eye lens"],"description_synonyms":["Proteoglycan, liquid chromatography tandem mass spectroscopy, visual_system, Perlecan, Collagens, human being, compound eye, Sulfate Proteoglycans, regio orbitalis, determination, inner limiting membrane, adult stage, Vitamin A, adult compound eye, Matrix, A4, alpha-Collagen, Gene, Homo sapiense, Matrices, TYPE, DAGA4, \"Komplexauge\", SDS, rat, perlecan (heparan sulfate proteoglycan 2) protein, Homo spaiens, Microfibril, Homo sapien, camera-type eye plus associated structures, Hspg2 protein, Dermodress, Collastat, Homo sapians, \"Facettenauge\", LC-MSMS, Gene Products, eye, heparan sulfate proteoglycan 2 (perlecan) protein, Basal Laminas, retina inner limiting membrane, LG3 peptide, capsula lentis, Extracellular Matrices, Zyderm, MAM, SCG3, adult, insoluble, study, Orbital region, Homo sapients, LCMSMS, inner limiting membrane of retina, eyes, Microfibril Collagen Hemostat, Avitene, ocular lens, crystalline lens, 4733401P19Rik, Retinene, proteins, man, alpha Collagen, Lamina, Endorepellin, 11 cis Retinal, HSPG, heparan sulfate proteoglycan 2 protein, \"zusammengesetztes Auge\", Homo sapience, retina internal limiting lamina, Collagen Fleece, Homo sampiens, Extracellular, Heparan Sulfate Proteoglycan, LC-MS-MS., Collagen, Heparan Sulfate, Collagenfleece, Home sapiens, LC-MS2, data, Basement, lens capsule, Basement Laminas, ILM, Vitamin A Aldehyde, Basement Lamina, Proteins, mouse, LC-MS/MS, AI836084, vertebrate eye, inner limiting membranes, Laminas, visual apparatus, LGMD2C, Proteoheparan Sulfate, polypeptide, Proteoglycans, Eyes, Axerophthal, LC/MS/MS, Experiment, Homo sapian, Protein, chemical analysis, Collagen Hemostat, 11-cis-Retinal, Basement Membranes, Homo sapeins, internal limiting membrane of retina, Adults, internal limiting lamina of retina, Pangen, eyeball, Retinal, Membranes, PLC, adults, DMDA1, resistant, Basal, Orbital part of face, heparan sulfate proteoglycan 2, Humo sapiens, SWDS, Avicon, Shwachman-Bodian-Diamond syndrome, Shwachman syndrome, Membrane, CGI-97, Homo sapines, stratum limitans internum retinae, human, Protein Gene Products, Gene Proteins, Heparan, Basal Lamina, Homo spiens, DMDA, \"human\" EXACT genbank_common_name [], orbital region, orbital part of face, Pancreatic insufficiency and bone marrow dysfunction, liquid chromatography-tandem mass spectroscopy, Aldehyde, SCARMD2, Collagen Felt, liquid chromatography tandem mass spectrometry, HSPG2 protein, assay, Proteomes, proteinaceous extracellular matrix"],"pubmed_title_synonyms":["set of retinal blood vessels, Basement, vasa sanguinea retinae, lens capsule, human being, Basement Laminas, ILM, inner limiting membrane, Basement Lamina, inner limiting membranes, Homo sapiense, Laminas, lens crystallina, lenses, Homo spaiens, retinal blood vessels, retina vasculature, Homo sapien, Homo sapian, Homo sapians, Basal Laminas, camera-type eye lens, retina inner limiting membrane, Basement Membranes, Homo sapeins, internal limiting membrane of retina, internal limiting lamina of retina, retinal vasculature, retinal blood vessels set, Membranes, Homo sapients, inner limiting membrane of retina, lens, Basal, ocular lens, Humo sapiens, crystalline lens, Membrane, man, Homo sapines, stratum limitans internum retinae, human, Microcapsules., Lamina, Basal Lamina, Homo spiens, \"human\" EXACT genbank_common_name [], Entire lens, Homo sapience, retina internal limiting lamina, Homo sampiens, set of blood vessels of retina, retina vasculature of camera-type eye, Home sapiens, eye lens"],"pubmed_abstract_synonyms":["liquid chromatography tandem mass spectroscopy, Extended Families, Networks, negative regulation of adrenergic receptor signalling pathway, visual_system, Collagens, Extended, Kinship, Sulfate Proteoglycans, determination, adult stage, A4, Extended Family, Homo sapiense, composed of, peptide, SDS, rat, Homo sapien, Homo sapians, \"Facettenauge\", eye, Blood vessel part, Life Cycle, Basal Laminas, LG3 peptide, capsula lentis, Extracellular Matrices, Zyderm, Laminin M, adult, Family Life Cycle, insoluble, Homo sapients, LCMSMS, inner limiting membrane of retina, Kinship Network, eyes, Microfibril Collagen Hemostat, ocular lens, crystalline lens, composition, proteins, Lamina, Endorepellin, HSPG, ch, \"zusammengesetztes Auge\", Homo sapience, retina internal limiting lamina, data., Collagen Fleece, Collagen, Family Life Cycles, Home sapiens, ratio, LC-MS2, Basement, Vitamin A Aldehyde, mouse, LC-MS/MS, AI836084, Laminin, vertebrate eye, Proteoheparan Sulfate, vasculature, Proteoglycans, Eyes, Homo sapian, M Chain, Basement Membranes, Filiation, Adults, eyeball, Retinal, adults, resistant, Reconstituted Family, content, Basal, Orbital part of face, Merosin, heparan sulfate proteoglycan 2, proportionality, rate, Shwachman syndrome, Homo sapines, human, Life Cycles, Heparan, DMDA, Reconstituted, false, orbital part of face, liquid chromatography-tandem mass spectroscopy, Aldehyde, regulation of adrenergic receptor signalling pathway, Laminin M Chain, Collagen Felt, Proteoglycan, Perlecan, human being, compound eye, Family Member, regio orbitalis, inner limiting membrane, Vitamin A, adult compound eye, Matrix, alpha-Collagen, Gene, Network, vessel, Matrices, TYPE, LC-MS-MS, DAGA4, \"Komplexauge\", perlecan (heparan sulfate proteoglycan 2) protein, Homo spaiens, Microfibril, blood vessels, camera-type eye plus associated structures, Hspg2 protein, Dermodress, Collastat, LC-MSMS, Gene Products, heparan sulfate proteoglycan 2 (perlecan) protein, Proteoglycan Type H, vascular element, retina inner limiting membrane, MAM, SCG3, Chain, study, Orbital region, proportion, Research, Avitene, 4733401P19Rik, Retinene, vas sanguineum, man, alpha Collagen, 11 cis Retinal, heparan sulfate proteoglycan 2 protein, Homo sampiens, Extracellular, Heparan Sulfate Proteoglycan, Glycoprotein GP-2, Kinship Networks, Heparan Sulfate, Family, Collagenfleece, Glycoprotein GP 2, data, lens capsule, Basement Laminas, Family Research, ILM, Basement Lamina, Proteins, Reconstituted Families, inner limiting membranes, compositionality, Laminas, visual apparatus, LGMD2C, Family Members, polypeptide, Axerophthal, LC/MS/MS, Stepfamily, Protein, chemical analysis, Collagen Hemostat, 11-cis-Retinal, Homo sapeins, internal limiting membrane of retina, region of vascular tree organ, internal limiting lamina of retina, Pangen, Membranes, PLC, DMDA1, Humo sapiens, SWDS, Avicon, Shwachman-Bodian-Diamond syndrome, Membrane, CGI-97, stratum limitans internum retinae, Protein Gene Products, Gene Proteins, Basal Lamina, Homo spiens, \"human\" EXACT genbank_common_name [], circulatory system, orbital region, Pancreatic insufficiency and bone marrow dysfunction, Families, SCARMD2, structure, quotient, vascular tree organ region, liquid chromatography tandem mass spectrometry, HSPG2 protein, assay, Relatives, Stepfamilies, proteinaceous extracellular matrix"],"view_count":["12"],"citation_count":["0"],"search_count":["5"],"full_dataset_link":["http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310002171"],"search_domains":["dbgap_ncbi~0","patentfamilies~0","rfam~0","merops~0","complex-portal~0","uniprot~0","wormbaseparasite~0","embl-covid19~0","reactome~0","emdb~0","wgs_masters~0","ebiweb_resources~0","opentargets_genetics~0","biomodels_all~0","ipd-mhc~0","ebiweb_teams~0","taxonomy~0","genome_assembly~0","sc-experiments~0","ebiweb_people~0","enzymeportal_enzymes~0","ipd-nhkir~0","cellosaurus~0","pdbe~0","chebi~0","patentproteins~0","interpro7~0","uniref~0","chembl~0","pdbekb~0","gpcrdb~0","hgnc~0","sc-genes~0","intact~0","rhea~0","ebiweb_training~0","alphafold~0","imgt-hla~0","patentnucleotides~0","ensemblroot~0","eva_studies~0","non-coding~0","europepmc~0","pubmed~1","identifiers_registry~0","pdbechem~0","hpa-covid19~0","eva-variants-covid19~0","biosamples~0","gwas_catalog~0","biotools~0","tls_masters~0","mesh~0","coding~0","sra~0","opentargets~0","efo~0","embl-pathogen~0","project~0","pride~1","human_diseases~0","geo_datasets~0","embl~0","treefam~0","uniparc~0","ols~0","dgva~0","intenz~0","go~0","tsa_masters~0","biosamples-covid19~0","ebiweb_corporate~0","omim~0","lrg~0","earlycause-molecular-sequences~0","ipd-kir~0","empiar~0","rnacentral~0","orcid_data_claims~0","gpmdb~2","lineage-covid19~0","metagenomics~0","pfam~0","pride archive~1","varsite~0"],"reanalysis_count":["0"],"submitter_keywords":["Resource Reanalysis"],"citation_count_scaled":["0.0"],"reanalysis_count_scaled":["0.0"],"view_count_scaled":["0.003701418877236274"],"download_count_scaled":["0.0"],"normalized_connections":["1.0"],"additional_accession":[]},"is_claimable":false,"name":"A proteomic view of basement membranes from human retinal blood vessels, inner limiting membranes, and lens capsules.","description":"Data from ProteomeXchange, PXD ID: PXD001025. Experiment: ILM, file: ILM-2.mzml. Published as part of J Proteome Res. 2014 Jul 2  . From the Abstract: {{i}} Basement membranes (BMs) are extracellular matrix sheets comprising the laminins, type IV collagens, nidogens, and the heparan sulfate proteoglycans, perlecan, collagen XVIII and agrin. In intact BMs, BM proteins are physiologically insoluble and partially resistant to proteolytic digestion, making BMs a challenge to study. Here, three types of BMs from adult human eyes, the inner limiting membrane, the retinal vascular BMs and the lens capsule, were isolated for analysis by 1D-SDS-PAGE and LC-MS/MS ... {{/i}}","dates":{"submission":"2014-07-18"},"accession":"GPM32310002171","cross_references":{"pubmed":["24990792"],"Pride":["PXD001025"],"pride":[],"Pride Archive":["PXD001025"]}}