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PubMed_ArguminSci

Id Subject Object Predicate Lexical cue
T1 157-351 DRI_Approach denotes Active matrix metalloproteases (MMPs) play a significant role in the pathogenesis of many diseases including osteoarthritis (OA), which involves progressive proteolytic degradation of cartilage.
T2 352-518 DRI_Outcome denotes Clinical success of OA interventions that target MMPs has been limited by a lack of information about the presence and activity of specific disease-related proteases.
T3 519-710 DRI_Approach denotes We therefore developed a chemoproteomics approach based on MS to characterize the release and activity of MMPs in an in vitro model of the early inflammatory phase of posttraumatic OA (PTOA).
T4 711-901 DRI_Approach denotes We designed and synthesized chemical activity-based probes (ABPs) to identify active MMPs in bovine cartilage explants cultured for 30 days with the proinflammatory cytokine, interleukin-1α.
T5 902-1280 DRI_Approach denotes Using these probes in an activity-based protein profiling-multidimensional identification technology (ABPP-MudPIT) approach, we identified active MMP-1, -2, -3, -7, -9, -12, and -13 in the medium after 10 days of culture, the time at which irreversible proteolysis of the collagen network in the explant was detected using proteolytic activation of FRET-quenched MMP substrates.
T6 1281-1449 DRI_Background denotes Total MMP levels were quantified by shotgun proteomics, which, taken with ABPP-MudPIT data, indicated the presence of predominantly inactive MMPs in the culture medium.
T7 1450-1610 DRI_Outcome denotes The selectivity of the ABPP-MudPIT approach was further validated by detection of specific endogenous MMPs activated de novo with 4-aminophenylmurcuric acetate.
T8 1611-1828 DRI_Challenge denotes The utility of the new ABPP-MudPIT approach for detecting molecular biomarkers of PTOA disease initiation and potential targets for therapeutics motivates possible application in other diseases involving MMP activity.

Goldhamster2_Cellosaurus

Id Subject Object Predicate Lexical cue
T1 46-47 CVCL_6479|Finite_cell_line|Mus musculus denotes a
T2 157-163 CVCL_C410|Hybridoma|Mus musculus denotes Active
T3 200-201 CVCL_6479|Finite_cell_line|Mus musculus denotes a
T4 406-409 CVCL_6758|Undefined_cell_line_type|Cricetulus griseus denotes has
T5 406-409 CVCL_E689|Transformed_cell_line|Homo sapiens denotes has
T6 426-427 CVCL_6479|Finite_cell_line|Mus musculus denotes a
T7 471-479 CVCL_C410|Hybridoma|Mus musculus denotes activity
T8 519-521 CVCL_5M23|Cancer_cell_line|Mesocricetus auratus denotes We
T9 542-543 CVCL_6479|Finite_cell_line|Mus musculus denotes a
T10 613-621 CVCL_C410|Hybridoma|Mus musculus denotes activity
T11 633-635 CVCL_8754|Cancer_cell_line|Homo sapiens denotes an
T12 633-635 CVCL_H241|Cancer_cell_line|Homo sapiens denotes an
T13 711-713 CVCL_5M23|Cancer_cell_line|Mesocricetus auratus denotes We
T14 748-756 CVCL_C410|Hybridoma|Mus musculus denotes activity
T15 789-795 CVCL_C410|Hybridoma|Mus musculus denotes active
T16 843-845 CVCL_J925|Hybridoma|Mus musculus denotes 30
T17 924-926 CVCL_8754|Cancer_cell_line|Homo sapiens denotes an
T18 924-926 CVCL_H241|Cancer_cell_line|Homo sapiens denotes an
T19 927-935 CVCL_C410|Hybridoma|Mus musculus denotes activity
T20 1027-1029 CVCL_5M23|Cancer_cell_line|Mesocricetus auratus denotes we
T21 1041-1047 CVCL_C410|Hybridoma|Mus musculus denotes active
T22 1052-1061 CVCL_HE67|Factor-dependent_cell_line|Mus musculus denotes 1, -2, -3
T23 1128-1132 CVCL_0047|Telomerase_immortalized_cell_line|Homo sapiens denotes time
T24 1237-1247 CVCL_C410|Hybridoma|Mus musculus denotes activation
T25 1557-1566 CVCL_C410|Hybridoma|Mus musculus denotes activated
T26 1819-1827 CVCL_C410|Hybridoma|Mus musculus denotes activity

GoldHamster

Id Subject Object Predicate Lexical cue
T1 19-25 UBERON:0027368 denotes matrix
T2 26-42 D045726 denotes metalloproteases
T3 57-66 UBERON:0002418 denotes cartilage
T4 57-66 UBERON:0007844 denotes cartilage
T5 100-110 D015415 denotes biomarkers
T6 100-110 D015415 denotes biomarkers
T7 141-155 D010003 denotes osteoarthritis
T8 141-155 D010003 denotes osteoarthritis
T9 164-170 UBERON:0027368 denotes matrix
T10 171-187 D045726 denotes metalloproteases
T11 189-193 D020782 denotes MMPs
T12 226-238 GO:0009405 denotes pathogenesis
T13 266-280 D010003 denotes osteoarthritis
T14 266-280 D010003 denotes osteoarthritis
T15 326-337 GO:0009056 denotes degradation
T16 341-350 UBERON:0002418 denotes cartilage
T17 341-350 UBERON:0007844 denotes cartilage
T18 401-405 D020782 denotes MMPs
T19 428-432 PR:Q9V853 denotes lack
T20 492-499 D004194 denotes disease
T21 492-499 D004194 denotes disease
T22 508-517 D010447 denotes proteases
T23 625-629 D020782 denotes MMPs
T24 796-800 D020782 denotes MMPs
T25 804-810 9913 denotes bovine
T26 811-820 UBERON:0002418 denotes cartilage
T27 811-820 UBERON:0007844 denotes cartilage
T31 886-899 PR:000001091 denotes interleukin-1
T30 886-899 D007375 denotes interleukin-1
T32 886-899 D007375 denotes interleukin-1
T37 942-949 SO:0000104 denotes protein
T36 942-949 PR:000000001 denotes protein
T33 942-949 GO:0003675 denotes protein
T34 942-949 CHEBI:36080 denotes protein
T35 942-949 CHEBI:11122 denotes protein
T38 1004-1008 P08592 denotes ABPP
T39 1004-1008 O93279 denotes ABPP
T40 1004-1008 Q28748 denotes ABPP
T41 1004-1008 Q60495 denotes ABPP
T42 1004-1008 P12023 denotes ABPP
T43 1004-1008 Q28757 denotes ABPP
T44 1004-1008 O73683 denotes ABPP
T45 1004-1008 Q95241 denotes ABPP
T46 1004-1008 P05067 denotes ABPP
T47 1004-1008 PR:000004168 denotes ABPP
T48 1004-1008 Q29149 denotes ABPP
T49 1004-1008 P79307 denotes ABPP
T50 1004-1008 P29216 denotes ABPP
T51 1004-1008 P86906 denotes ABPP
T52 1004-1008 Q28280 denotes ABPP
T53 1004-1008 Q28053 denotes ABPP
T54 1004-1008 Q5IS80 denotes ABPP
T55 1004-1008 P53601 denotes ABPP
T56 1048-1051 CHEBI:340824 denotes MMP
T59 1048-1051 CHEBI:59761 denotes MMP
T61 1048-1053 Q11133 denotes MMP-1
T62 1048-1053 P13943 denotes MMP-1
T63 1048-1053 PR:P03956 denotes MMP-1
T64 1048-1053 P21692 denotes MMP-1
T65 1048-1053 PR:Q8GWW6 denotes MMP-1
T66 1048-1053 P81563 denotes MMP-1
T67 1048-1053 PR:000010469 denotes MMP-1
T68 1048-1053 Q9XSZ5 denotes MMP-1
T69 1048-1053 P28053 denotes MMP-1
T70 1048-1053 PR:Q12372 denotes MMP-1
T71 1048-1053 P03956 denotes MMP-1
T60 1048-1053 GO:0004232 denotes MMP-1
T72 1155-1166 GO:0006508 denotes proteolysis
T74 1174-1182 2714 denotes collagen
T75 1174-1182 D003094 denotes collagen
T76 1174-1182 CHEBI:3815 denotes collagen
T73 1174-1182 GO:0005202 denotes collagen
T77 1174-1190 GO:0098645 denotes collagen network
T80 1265-1268 PR:O04529 denotes MMP
T78 1265-1268 CHEBI:340824 denotes MMP
T81 1265-1268 CHEBI:59761 denotes MMP
T79 1265-1268 GO:0004235 denotes MMP
T84 1287-1290 PR:O04529 denotes MMP
T82 1287-1290 CHEBI:340824 denotes MMP
T85 1287-1290 CHEBI:59761 denotes MMP
T83 1287-1290 GO:0004235 denotes MMP
T86 1355-1359 P08592 denotes ABPP
T87 1355-1359 O93279 denotes ABPP
T88 1355-1359 Q28748 denotes ABPP
T89 1355-1359 Q60495 denotes ABPP
T90 1355-1359 P12023 denotes ABPP
T91 1355-1359 Q28757 denotes ABPP
T92 1355-1359 O73683 denotes ABPP
T93 1355-1359 Q95241 denotes ABPP
T94 1355-1359 P05067 denotes ABPP
T95 1355-1359 PR:000004168 denotes ABPP
T96 1355-1359 Q29149 denotes ABPP
T97 1355-1359 P79307 denotes ABPP
T98 1355-1359 P29216 denotes ABPP
T99 1355-1359 P86906 denotes ABPP
T100 1355-1359 Q28280 denotes ABPP
T101 1355-1359 Q28053 denotes ABPP
T102 1355-1359 Q5IS80 denotes ABPP
T103 1355-1359 P53601 denotes ABPP
T104 1422-1426 D020782 denotes MMPs
T105 1473-1477 P08592 denotes ABPP
T106 1473-1477 O93279 denotes ABPP
T107 1473-1477 Q28748 denotes ABPP
T108 1473-1477 Q60495 denotes ABPP
T109 1473-1477 P12023 denotes ABPP
T110 1473-1477 Q28757 denotes ABPP
T111 1473-1477 O73683 denotes ABPP
T112 1473-1477 Q95241 denotes ABPP
T113 1473-1477 P05067 denotes ABPP
T114 1473-1477 PR:000004168 denotes ABPP
T115 1473-1477 Q29149 denotes ABPP
T116 1473-1477 P79307 denotes ABPP
T117 1473-1477 P29216 denotes ABPP
T118 1473-1477 P86906 denotes ABPP
T119 1473-1477 Q28280 denotes ABPP
T120 1473-1477 Q28053 denotes ABPP
T121 1473-1477 Q5IS80 denotes ABPP
T122 1473-1477 P53601 denotes ABPP
T123 1506-1515 SO:0000789 denotes validated
T124 1552-1556 D020782 denotes MMPs
T125 1602-1609 CHEBI:47622 denotes acetate
T127 1602-1609 CHEBI:30089 denotes acetate
T126 1602-1609 164 denotes acetate
T128 1634-1638 P08592 denotes ABPP
T129 1634-1638 O93279 denotes ABPP
T130 1634-1638 Q28748 denotes ABPP
T131 1634-1638 Q60495 denotes ABPP
T132 1634-1638 P12023 denotes ABPP
T133 1634-1638 Q28757 denotes ABPP
T134 1634-1638 O73683 denotes ABPP
T135 1634-1638 Q95241 denotes ABPP
T136 1634-1638 P05067 denotes ABPP
T137 1634-1638 PR:000004168 denotes ABPP
T138 1634-1638 Q29149 denotes ABPP
T139 1634-1638 P79307 denotes ABPP
T140 1634-1638 P29216 denotes ABPP
T141 1634-1638 P86906 denotes ABPP
T142 1634-1638 Q28280 denotes ABPP
T143 1634-1638 Q28053 denotes ABPP
T144 1634-1638 Q5IS80 denotes ABPP
T145 1634-1638 P53601 denotes ABPP
T146 1679-1689 D015415 denotes biomarkers
T147 1679-1689 D015415 denotes biomarkers
T148 1698-1705 D004194 denotes disease
T149 1698-1705 D004194 denotes disease
T152 1815-1818 PR:O04529 denotes MMP
T150 1815-1818 CHEBI:340824 denotes MMP
T153 1815-1818 CHEBI:59761 denotes MMP
T151 1815-1818 GO:0004235 denotes MMP

Inflammaging

Id Subject Object Predicate Lexical cue
T1 0-156 Sentence denotes Chemoproteomics of matrix metalloproteases in a model of cartilage degeneration suggests functional biomarkers associated with posttraumatic osteoarthritis.
T2 157-351 Sentence denotes Active matrix metalloproteases (MMPs) play a significant role in the pathogenesis of many diseases including osteoarthritis (OA), which involves progressive proteolytic degradation of cartilage.
T3 352-518 Sentence denotes Clinical success of OA interventions that target MMPs has been limited by a lack of information about the presence and activity of specific disease-related proteases.
T4 519-710 Sentence denotes We therefore developed a chemoproteomics approach based on MS to characterize the release and activity of MMPs in an in vitro model of the early inflammatory phase of posttraumatic OA (PTOA).
T5 711-901 Sentence denotes We designed and synthesized chemical activity-based probes (ABPs) to identify active MMPs in bovine cartilage explants cultured for 30 days with the proinflammatory cytokine, interleukin-1α.
T6 902-1280 Sentence denotes Using these probes in an activity-based protein profiling-multidimensional identification technology (ABPP-MudPIT) approach, we identified active MMP-1, -2, -3, -7, -9, -12, and -13 in the medium after 10 days of culture, the time at which irreversible proteolysis of the collagen network in the explant was detected using proteolytic activation of FRET-quenched MMP substrates.
T7 1281-1449 Sentence denotes Total MMP levels were quantified by shotgun proteomics, which, taken with ABPP-MudPIT data, indicated the presence of predominantly inactive MMPs in the culture medium.
T8 1450-1610 Sentence denotes The selectivity of the ABPP-MudPIT approach was further validated by detection of specific endogenous MMPs activated de novo with 4-aminophenylmurcuric acetate.
T9 1611-1828 Sentence denotes The utility of the new ABPP-MudPIT approach for detecting molecular biomarkers of PTOA disease initiation and potential targets for therapeutics motivates possible application in other diseases involving MMP activity.
T1 0-156 Sentence denotes Chemoproteomics of matrix metalloproteases in a model of cartilage degeneration suggests functional biomarkers associated with posttraumatic osteoarthritis.
T2 157-351 Sentence denotes Active matrix metalloproteases (MMPs) play a significant role in the pathogenesis of many diseases including osteoarthritis (OA), which involves progressive proteolytic degradation of cartilage.
T3 352-518 Sentence denotes Clinical success of OA interventions that target MMPs has been limited by a lack of information about the presence and activity of specific disease-related proteases.
T4 519-710 Sentence denotes We therefore developed a chemoproteomics approach based on MS to characterize the release and activity of MMPs in an in vitro model of the early inflammatory phase of posttraumatic OA (PTOA).
T5 711-901 Sentence denotes We designed and synthesized chemical activity-based probes (ABPs) to identify active MMPs in bovine cartilage explants cultured for 30 days with the proinflammatory cytokine, interleukin-1α.
T6 902-1280 Sentence denotes Using these probes in an activity-based protein profiling-multidimensional identification technology (ABPP-MudPIT) approach, we identified active MMP-1, -2, -3, -7, -9, -12, and -13 in the medium after 10 days of culture, the time at which irreversible proteolysis of the collagen network in the explant was detected using proteolytic activation of FRET-quenched MMP substrates.
T7 1281-1449 Sentence denotes Total MMP levels were quantified by shotgun proteomics, which, taken with ABPP-MudPIT data, indicated the presence of predominantly inactive MMPs in the culture medium.
T8 1450-1610 Sentence denotes The selectivity of the ABPP-MudPIT approach was further validated by detection of specific endogenous MMPs activated de novo with 4-aminophenylmurcuric acetate.
T9 1611-1828 Sentence denotes The utility of the new ABPP-MudPIT approach for detecting molecular biomarkers of PTOA disease initiation and potential targets for therapeutics motivates possible application in other diseases involving MMP activity.

sentences

Id Subject Object Predicate Lexical cue
T1 0-156 Sentence denotes Chemoproteomics of matrix metalloproteases in a model of cartilage degeneration suggests functional biomarkers associated with posttraumatic osteoarthritis.
T2 157-351 Sentence denotes Active matrix metalloproteases (MMPs) play a significant role in the pathogenesis of many diseases including osteoarthritis (OA), which involves progressive proteolytic degradation of cartilage.
T3 352-518 Sentence denotes Clinical success of OA interventions that target MMPs has been limited by a lack of information about the presence and activity of specific disease-related proteases.
T4 519-710 Sentence denotes We therefore developed a chemoproteomics approach based on MS to characterize the release and activity of MMPs in an in vitro model of the early inflammatory phase of posttraumatic OA (PTOA).
T5 711-901 Sentence denotes We designed and synthesized chemical activity-based probes (ABPs) to identify active MMPs in bovine cartilage explants cultured for 30 days with the proinflammatory cytokine, interleukin-1α.
T6 902-1280 Sentence denotes Using these probes in an activity-based protein profiling-multidimensional identification technology (ABPP-MudPIT) approach, we identified active MMP-1, -2, -3, -7, -9, -12, and -13 in the medium after 10 days of culture, the time at which irreversible proteolysis of the collagen network in the explant was detected using proteolytic activation of FRET-quenched MMP substrates.
T7 1281-1449 Sentence denotes Total MMP levels were quantified by shotgun proteomics, which, taken with ABPP-MudPIT data, indicated the presence of predominantly inactive MMPs in the culture medium.
T8 1450-1610 Sentence denotes The selectivity of the ABPP-MudPIT approach was further validated by detection of specific endogenous MMPs activated de novo with 4-aminophenylmurcuric acetate.
T9 1611-1828 Sentence denotes The utility of the new ABPP-MudPIT approach for detecting molecular biomarkers of PTOA disease initiation and potential targets for therapeutics motivates possible application in other diseases involving MMP activity.

Glycosmos6-MAT

Id Subject Object Predicate Lexical cue
T1 57-66 http://purl.obolibrary.org/obo/MAT_0000189 denotes cartilage
T2 341-350 http://purl.obolibrary.org/obo/MAT_0000189 denotes cartilage
T3 811-820 http://purl.obolibrary.org/obo/MAT_0000189 denotes cartilage

HP-phenotype

Id Subject Object Predicate Lexical cue hp_id
T1 141-155 Phenotype denotes osteoarthritis HP:0002758
T2 266-280 Phenotype denotes osteoarthritis HP:0002758
T3 282-284 Phenotype denotes OA HP:0002758
T4 372-374 Phenotype denotes OA HP:0002758
T5 700-702 Phenotype denotes OA HP:0002758

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 141-155 Disease denotes osteoarthritis http://purl.obolibrary.org/obo/MONDO_0005178
T2 266-280 Disease denotes osteoarthritis http://purl.obolibrary.org/obo/MONDO_0005178
T3 282-284 Disease denotes OA http://purl.obolibrary.org/obo/MONDO_0005178
T4 372-374 Disease denotes OA http://purl.obolibrary.org/obo/MONDO_0005178
T5 700-702 Disease denotes OA http://purl.obolibrary.org/obo/MONDO_0005178

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 804-810 OrganismTaxon denotes bovine 9913

Anatomy-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 57-66 Body_part denotes cartilage http://purl.obolibrary.org/obo/UBERON_0002418|http://purl.obolibrary.org/obo/UBERON_0007844
T3 341-350 Body_part denotes cartilage http://purl.obolibrary.org/obo/UBERON_0002418|http://purl.obolibrary.org/obo/UBERON_0007844
T5 811-820 Body_part denotes cartilage http://purl.obolibrary.org/obo/UBERON_0002418|http://purl.obolibrary.org/obo/UBERON_0007844
T7 1174-1190 Body_part denotes collagen network http://purl.obolibrary.org/obo/GO_0098645

Anatomy-MAT

Id Subject Object Predicate Lexical cue mat_id
T1 57-66 Body_part denotes cartilage http://purl.obolibrary.org/obo/MAT_0000189
T2 341-350 Body_part denotes cartilage http://purl.obolibrary.org/obo/MAT_0000189
T3 811-820 Body_part denotes cartilage http://purl.obolibrary.org/obo/MAT_0000189