{"id":"https://openalex.org/W2097570569","doi":"https://doi.org/10.1109/tbme.2011.2165955","title":"A Multiscale Framework Based on the Physiome Markup Languages for Exploring the Initiation of Osteoarthritis at the Bone\u2013Cartilage Interface","display_name":"A Multiscale Framework Based on the Physiome Markup Languages for Exploring the Initiation of Osteoarthritis at the Bone\u2013Cartilage Interface","publication_year":2011,"publication_date":"2011-08-31","ids":{"openalex":"https://openalex.org/W2097570569","doi":"https://doi.org/10.1109/tbme.2011.2165955","mag":"2097570569","pmid":"https://pubmed.ncbi.nlm.nih.gov/21878409"},"language":"en","primary_location":{"id":"doi:10.1109/tbme.2011.2165955","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tbme.2011.2165955","pdf_url":null,"source":{"id":"https://openalex.org/S5240358","display_name":"IEEE Transactions on Biomedical Engineering","issn_l":"0018-9294","issn":["0018-9294","1558-2531"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Biomedical Engineering","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5000359126","display_name":"Vickie Shim","orcid":"https://orcid.org/0000-0002-1680-4287"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"V. B. Shim","raw_affiliation_strings":["Auckland Bioengineering Institute, Auckland 1010, New Zealand. v.shim@auckland.ac.nz","Auckland Bioeng. Inst., Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, Auckland 1010, New Zealand. v.shim@auckland.ac.nz","institution_ids":[]},{"raw_affiliation_string":"Auckland Bioeng. Inst., Auckland, New Zealand","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064457425","display_name":"Peter Hunter","orcid":"https://orcid.org/0000-0001-9665-4145"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"P. J. Hunter","raw_affiliation_strings":["Auckland Bioengineering Institute, Auckland, New Zealand","Auckland Bioeng. Inst., Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, Auckland, New Zealand","institution_ids":[]},{"raw_affiliation_string":"Auckland Bioeng. Inst., Auckland, New Zealand","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063647356","display_name":"Peter Pivonka","orcid":"https://orcid.org/0000-0001-9183-530X"},"institutions":[{"id":"https://openalex.org/I177877127","display_name":"The University of Western Australia","ror":"https://ror.org/047272k79","country_code":"AU","type":"education","lineage":["https://openalex.org/I177877127"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"P. Pivonka","raw_affiliation_strings":["School of Computer Science and Software Engineering, University of Western Australia, Perth, WA, Australia","School of Computer Science and Software Engineering; University of Western Australia; Perth WA Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Software Engineering, University of Western Australia, Perth, WA, Australia","institution_ids":["https://openalex.org/I177877127"]},{"raw_affiliation_string":"School of Computer Science and Software Engineering; University of Western Australia; Perth WA Australia","institution_ids":["https://openalex.org/I177877127"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023355749","display_name":"Justin Fernandez","orcid":"https://orcid.org/0000-0001-7721-8698"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"J. W. Fernandez","raw_affiliation_strings":["Auckland Bioengineering Institute, Auckland, New Zealand","Auckland Bioeng. Inst., Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Auckland Bioengineering Institute, Auckland, New Zealand","institution_ids":[]},{"raw_affiliation_string":"Auckland Bioeng. Inst., Auckland, New Zealand","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.6835,"has_fulltext":false,"cited_by_count":26,"citation_normalized_percentile":{"value":0.89231683,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"58","issue":"12","first_page":"3532","last_page":"3536"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10105","display_name":"Osteoarthritis Treatment and Mechanisms","score":0.9836000204086304,"subfield":{"id":"https://openalex.org/subfields/2745","display_name":"Rheumatology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10105","display_name":"Osteoarthritis Treatment and Mechanisms","score":0.9836000204086304,"subfield":{"id":"https://openalex.org/subfields/2745","display_name":"Rheumatology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10562","display_name":"Total Knee Arthroplasty Outcomes","score":0.9509999752044678,"subfield":{"id":"https://openalex.org/subfields/2746","display_name":"Surgery"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9348000288009644,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/markup-language","display_name":"Markup language","score":0.8209853768348694},{"id":"https://openalex.org/keywords/osteoarthritis","display_name":"Osteoarthritis","score":0.7010501027107239},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.633346676826477},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.6257637739181519},{"id":"https://openalex.org/keywords/cartilage","display_name":"Cartilage","score":0.5455072522163391},{"id":"https://openalex.org/keywords/biomedical-engineering","display_name":"Biomedical engineering","score":0.3312365412712097},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.31651780009269714},{"id":"https://openalex.org/keywords/anatomy","display_name":"Anatomy","score":0.14872798323631287},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.13663864135742188},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.10085669159889221},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.07420158386230469}],"concepts":[{"id":"https://openalex.org/C45874996","wikidata":"https://www.wikidata.org/wiki/Q37045","display_name":"Markup language","level":3,"score":0.8209853768348694},{"id":"https://openalex.org/C2776164576","wikidata":"https://www.wikidata.org/wiki/Q62736","display_name":"Osteoarthritis","level":3,"score":0.7010501027107239},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.633346676826477},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.6257637739181519},{"id":"https://openalex.org/C2780550940","wikidata":"https://www.wikidata.org/wiki/Q502730","display_name":"Cartilage","level":2,"score":0.5455072522163391},{"id":"https://openalex.org/C136229726","wikidata":"https://www.wikidata.org/wiki/Q327092","display_name":"Biomedical engineering","level":1,"score":0.3312365412712097},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.31651780009269714},{"id":"https://openalex.org/C105702510","wikidata":"https://www.wikidata.org/wiki/Q514","display_name":"Anatomy","level":1,"score":0.14872798323631287},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.13663864135742188},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.10085669159889221},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.07420158386230469},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C204787440","wikidata":"https://www.wikidata.org/wiki/Q188504","display_name":"Alternative medicine","level":2,"score":0.0},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D001696","descriptor_name":"Biomechanical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001696","descriptor_name":"Biomechanical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001696","descriptor_name":"Biomechanical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001842","descriptor_name":"Bone and Bones","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D001842","descriptor_name":"Bone and Bones","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D001842","descriptor_name":"Bone and Bones","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D002356","descriptor_name":"Cartilage","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D002356","descriptor_name":"Cartilage","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D002356","descriptor_name":"Cartilage","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007249","descriptor_name":"Inflammation","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D007249","descriptor_name":"Inflammation","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D007249","descriptor_name":"Inflammation","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010003","descriptor_name":"Osteoarthritis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D010003","descriptor_name":"Osteoarthritis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D010003","descriptor_name":"Osteoarthritis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016118","descriptor_name":"Anterior Cruciate Ligament","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D016118","descriptor_name":"Anterior Cruciate Ligament","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D016118","descriptor_name":"Anterior Cruciate Ligament","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020342","descriptor_name":"Finite Element Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020342","descriptor_name":"Finite Element Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020342","descriptor_name":"Finite Element Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1109/tbme.2011.2165955","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tbme.2011.2165955","pdf_url":null,"source":{"id":"https://openalex.org/S5240358","display_name":"IEEE Transactions on Biomedical Engineering","issn_l":"0018-9294","issn":["0018-9294","1558-2531"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Biomedical Engineering","raw_type":"journal-article"},{"id":"pmid:21878409","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21878409","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE transactions on bio-medical engineering","raw_type":null},{"id":"pmh:oai:pure.atira.dk:publications/4dfe2bee-7eaf-40e1-88f2-d56e326f4c55","is_oa":false,"landing_page_url":"https://research-repository.uwa.edu.au/en/publications/4dfe2bee-7eaf-40e1-88f2-d56e326f4c55","pdf_url":null,"source":{"id":"https://openalex.org/S4306402523","display_name":"UWA Profiles and Research Repository (University of Western Australia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I177877127","host_organization_name":"The University of Western Australia","host_organization_lineage":["https://openalex.org/I177877127"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Shim, V B, Hunter, P J, Pivonka, P & Fernandez, J W 2011, 'A Multiscale Framework Based on the Physiome Markup Languages for Exploring the Initiation of Osteoarthritis at the Bone-Cartilage Interface', IEEE Transactions on Biomedical Engineering, vol. 58, no. 12, pp. 3532-3536. https://doi.org/10.1109/TBME.2011.2165955","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:researchspace.auckland.ac.nz:2292/25514","is_oa":false,"landing_page_url":"https://hdl.handle.net/2292/25514","pdf_url":null,"source":{"id":"https://openalex.org/S7407055463","display_name":"ResearchSpace (University of Auckland)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I154130895","host_organization_name":"University of Auckland","host_organization_lineage":["https://openalex.org/I154130895"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6899999976158142,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W96737945","https://openalex.org/W1982329236","https://openalex.org/W1989520885","https://openalex.org/W1997523154","https://openalex.org/W1999589417","https://openalex.org/W2025287622","https://openalex.org/W2039651603","https://openalex.org/W2041517292","https://openalex.org/W2047480488","https://openalex.org/W2061688221","https://openalex.org/W2064962545","https://openalex.org/W2066536946","https://openalex.org/W2087384197","https://openalex.org/W2104904898","https://openalex.org/W2131645519","https://openalex.org/W2138850160","https://openalex.org/W2139561582","https://openalex.org/W2139687606","https://openalex.org/W2160767700","https://openalex.org/W2161504393","https://openalex.org/W2161606852"],"related_works":["https://openalex.org/W4385386698","https://openalex.org/W4388119604","https://openalex.org/W2954418080","https://openalex.org/W650762618","https://openalex.org/W3121570353","https://openalex.org/W818235636","https://openalex.org/W4388119676","https://openalex.org/W2354155665","https://openalex.org/W2609988931","https://openalex.org/W3133714215"],"abstract_inverted_index":{"The":[0],"initiation":[1],"of":[2,13,85,96,135],"osteoarthritis":[3],"(OA)":[4],"has":[5],"been":[6],"linked":[7],"to":[8,45,125,152,159,177],"the":[9,17,28,40,56,61,70,83,90,94,102,122,140],"onset":[10,176],"and":[11,30,66,73,93,99,105,113,129,174,179],"progression":[12],"pathologic":[14],"mechanisms":[15],"at":[16,69,89,101],"cartilage-bone":[18],"interface.":[19],"Most":[20],"importantly,":[21],"this":[22,47,77],"degenerative":[23],"disease":[24,175],"involves":[25],"cross-talk":[26],"between":[27],"cartilage":[29,65,114,136],"subchondral":[31],"bone":[32,67,97,112],"environments,":[33],"so":[34],"an":[35],"informative":[36],"model":[37,54,82],"should":[38],"contain":[39],"complete":[41],"complex.":[42],"In":[43,76],"order":[44],"evaluate":[46,139],"process,":[48],"we":[49,79],"have":[50,106],"developed":[51,59],"a":[52,131,144,156,165],"multiscale":[53],"using":[55],"open-source":[57],"ontologies":[58],"for":[60,169],"Physiome":[62],"Project":[63],"with":[64],"descriptions":[68],"cellular,":[71],"micro,":[72],"macro":[74,91,132],"levels.":[75],"way,":[78],"can":[80],"effectively":[81],"influence":[84,95],"whole":[86],"body":[87],"loadings":[88],"level":[92,108],"organization":[98],"architecture":[100,128],"micro":[103,127],"level,":[104],"cell":[107],"processes":[109],"that":[110],"determine":[111],"remodeling.":[115],"Cell":[116],"information":[117],"is":[118],"then":[119],"passed":[120],"up":[121],"spatial":[123,133],"scales":[124],"modify":[126],"provide":[130],"characterization":[134],"inflammation.":[137],"We":[138],"framework":[141,163],"by":[142],"linking":[143],"common":[145],"knee":[146],"injury":[147],"(anterior":[148],"cruciate":[149],"ligament":[150],"deficiency)":[151],"proinflammatory":[153],"mediators":[154],"as":[155],"possible":[157],"pathway":[158],"initiate":[160],"OA.":[161],"This":[162],"provides":[164],"\"virtual":[166],"bone-cartilage\"":[167],"tool":[168],"evaluating":[170],"hypotheses,":[171],"treatment":[172],"effects,":[173],"inform":[178],"strengthen":[180],"clinical":[181],"studies.":[182]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":6}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
