{"id":"https://openalex.org/W4386317727","doi":"https://doi.org/10.1371/journal.pcbi.1011404","title":"Phylogenetic inference of the emergence of sequence modules and protein-protein interactions in the ADAMTS-TSL family","display_name":"Phylogenetic inference of the emergence of sequence modules and protein-protein interactions in the ADAMTS-TSL family","publication_year":2023,"publication_date":"2023-08-31","ids":{"openalex":"https://openalex.org/W4386317727","doi":"https://doi.org/10.1371/journal.pcbi.1011404","pmid":"https://pubmed.ncbi.nlm.nih.gov/37651409"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1011404","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1011404","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011404&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011404&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053700598","display_name":"Olivier Dennler","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I165283593","display_name":"\u00c9cole des Hautes \u00c9tudes en Sant\u00e9 Publique","ror":"https://ror.org/01sc83v92","country_code":"FR","type":"education","lineage":["https://openalex.org/I165283593"]},{"id":"https://openalex.org/I2802519937","display_name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires","ror":"https://ror.org/00myn0z94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I4210108239","display_name":"Institut de Recherche en Sant\u00e9, Environnement et Travail","ror":"https://ror.org/01p178v10","country_code":"FR","type":"facility","lineage":["https://openalex.org/I154526488","https://openalex.org/I165283593","https://openalex.org/I4210108239","https://openalex.org/I49451733","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I4405260663","display_name":"DYLISS: Dynamics, Logics and Inference for biological Systems and Sequences","ror":"https://ror.org/043ja9593","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210133778","https://openalex.org/I4210159245","https://openalex.org/I4405260663","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I56067802","display_name":"Universit\u00e9 de Rennes","ror":"https://ror.org/015m7wh34","country_code":"FR","type":"education","lineage":["https://openalex.org/I56067802"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Olivier Dennler","raw_affiliation_strings":["Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","Univ Rennes, Inserm, EHESP, Irset, UMR S1085, Rennes, France","Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)","Irset - Institut de recherche en sant\u00e9, environnement et travail (263 avenue G\u00e9n\u00e9ral Leclerc 35042 Rennes Cedex - France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2802519937","https://openalex.org/I56067802"]},{"raw_affiliation_string":"Univ Rennes, Inserm, EHESP, Irset, UMR S1085, Rennes, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I165283593","https://openalex.org/I4210108239","https://openalex.org/I56067802"]},{"raw_affiliation_string":"Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)","institution_ids":["https://openalex.org/I4405260663"]},{"raw_affiliation_string":"Irset - Institut de recherche en sant\u00e9, environnement et travail (263 avenue G\u00e9n\u00e9ral Leclerc 35042 Rennes Cedex - France)","institution_ids":["https://openalex.org/I4210108239"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055528856","display_name":"F Coste","orcid":"https://orcid.org/0000-0001-9134-6557"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I2802519937","display_name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires","ror":"https://ror.org/00myn0z94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I4405260663","display_name":"DYLISS: Dynamics, Logics and Inference for biological Systems and Sequences","ror":"https://ror.org/043ja9593","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210133778","https://openalex.org/I4210159245","https://openalex.org/I4405260663","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I56067802","display_name":"Universit\u00e9 de Rennes","ror":"https://ror.org/015m7wh34","country_code":"FR","type":"education","lineage":["https://openalex.org/I56067802"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Fran\u00e7ois Coste","raw_affiliation_strings":["Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)"],"raw_orcid":"https://orcid.org/0000-0001-9134-6557","affiliations":[{"raw_affiliation_string":"Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2802519937","https://openalex.org/I56067802"]},{"raw_affiliation_string":"Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)","institution_ids":["https://openalex.org/I4405260663"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090186467","display_name":"Samuel Blanquart","orcid":"https://orcid.org/0000-0002-1408-3068"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I2802519937","display_name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires","ror":"https://ror.org/00myn0z94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I4405260663","display_name":"DYLISS: Dynamics, Logics and Inference for biological Systems and Sequences","ror":"https://ror.org/043ja9593","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210133778","https://openalex.org/I4210159245","https://openalex.org/I4405260663","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I56067802","display_name":"Universit\u00e9 de Rennes","ror":"https://ror.org/015m7wh34","country_code":"FR","type":"education","lineage":["https://openalex.org/I56067802"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Samuel Blanquart","raw_affiliation_strings":["Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2802519937","https://openalex.org/I56067802"]},{"raw_affiliation_string":"Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)","institution_ids":["https://openalex.org/I4405260663"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006160656","display_name":"Catherine Belleann\u00e9e","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I2802519937","display_name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires","ror":"https://ror.org/00myn0z94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I4405260663","display_name":"DYLISS: Dynamics, Logics and Inference for biological Systems and Sequences","ror":"https://ror.org/043ja9593","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210133778","https://openalex.org/I4210159245","https://openalex.org/I4405260663","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I56067802","display_name":"Universit\u00e9 de Rennes","ror":"https://ror.org/015m7wh34","country_code":"FR","type":"education","lineage":["https://openalex.org/I56067802"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Catherine Belleann\u00e9e","raw_affiliation_strings":["Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2802519937","https://openalex.org/I56067802"]},{"raw_affiliation_string":"Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)","institution_ids":["https://openalex.org/I4405260663"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046388663","display_name":"Nathalie Th\u00e9ret","orcid":"https://orcid.org/0000-0002-5857-7828"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I165283593","display_name":"\u00c9cole des Hautes \u00c9tudes en Sant\u00e9 Publique","ror":"https://ror.org/01sc83v92","country_code":"FR","type":"education","lineage":["https://openalex.org/I165283593"]},{"id":"https://openalex.org/I2802519937","display_name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires","ror":"https://ror.org/00myn0z94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I4210108239","display_name":"Institut de Recherche en Sant\u00e9, Environnement et Travail","ror":"https://ror.org/01p178v10","country_code":"FR","type":"facility","lineage":["https://openalex.org/I154526488","https://openalex.org/I165283593","https://openalex.org/I4210108239","https://openalex.org/I49451733","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I4405260663","display_name":"DYLISS: Dynamics, Logics and Inference for biological Systems and Sequences","ror":"https://ror.org/043ja9593","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210133778","https://openalex.org/I4210159245","https://openalex.org/I4405260663","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I56067802","display_name":"Universit\u00e9 de Rennes","ror":"https://ror.org/015m7wh34","country_code":"FR","type":"education","lineage":["https://openalex.org/I56067802"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Nathalie Th\u00e9ret","raw_affiliation_strings":["Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","Univ Rennes, Inserm, EHESP, Irset, UMR S1085, Rennes, France","Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)","Irset - Institut de recherche en sant\u00e9, environnement et travail (263 avenue G\u00e9n\u00e9ral Leclerc 35042 Rennes Cedex - France)"],"raw_orcid":"https://orcid.org/0000-0002-5857-7828","affiliations":[{"raw_affiliation_string":"Univ Rennes, Inria, CNRS, IRISA, UMR 6074, Rennes, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2802519937","https://openalex.org/I56067802"]},{"raw_affiliation_string":"Univ Rennes, Inserm, EHESP, Irset, UMR S1085, Rennes, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I165283593","https://openalex.org/I4210108239","https://openalex.org/I56067802"]},{"raw_affiliation_string":"Dyliss - Dynamics, Logics and Inference for biological Systems and Sequences (Campus de Beaulieu 35042 Rennes cedex - France)","institution_ids":["https://openalex.org/I4405260663"]},{"raw_affiliation_string":"Irset - Institut de recherche en sant\u00e9, environnement et travail (263 avenue G\u00e9n\u00e9ral Leclerc 35042 Rennes Cedex - France)","institution_ids":["https://openalex.org/I4210108239"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2484,"currency":"EUR","value_usd":2678},"fwci":0.1816,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.45819803,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":95},"biblio":{"volume":"19","issue":"8","first_page":"e1011404","last_page":"e1011404"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13157","display_name":"Cancer-related gene regulation","score":0.9053999781608582,"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"}},"topics":[{"id":"https://openalex.org/T13157","display_name":"Cancer-related gene regulation","score":0.9053999781608582,"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/adamts","display_name":"ADAMTS","score":0.7641904354095459},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.7089624404907227},{"id":"https://openalex.org/keywords/thrombospondin","display_name":"Thrombospondin","score":0.6785176992416382},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6536901593208313},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6342409253120422},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.5484290719032288},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.5296064615249634},{"id":"https://openalex.org/keywords/protein-domain","display_name":"Protein domain","score":0.500413179397583},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4972710907459259},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4821776747703552},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4648287296295166},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.4617922306060791},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.46034669876098633},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.459171324968338},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4579048156738281},{"id":"https://openalex.org/keywords/protein-family","display_name":"Protein family","score":0.45133596658706665},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.4143405556678772},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.3847951889038086},{"id":"https://openalex.org/keywords/metalloproteinase","display_name":"Metalloproteinase","score":0.3059421181678772}],"concepts":[{"id":"https://openalex.org/C2776224515","wikidata":"https://www.wikidata.org/wiki/Q102253084","display_name":"ADAMTS","level":5,"score":0.7641904354095459},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.7089624404907227},{"id":"https://openalex.org/C167814343","wikidata":"https://www.wikidata.org/wiki/Q419341","display_name":"Thrombospondin","level":4,"score":0.6785176992416382},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6536901593208313},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6342409253120422},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.5484290719032288},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.5296064615249634},{"id":"https://openalex.org/C144292202","wikidata":"https://www.wikidata.org/wiki/Q898273","display_name":"Protein domain","level":3,"score":0.500413179397583},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4972710907459259},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4821776747703552},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4648287296295166},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.4617922306060791},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.46034669876098633},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.459171324968338},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4579048156738281},{"id":"https://openalex.org/C171897839","wikidata":"https://www.wikidata.org/wiki/Q417841","display_name":"Protein family","level":3,"score":0.45133596658706665},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.4143405556678772},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.3847951889038086},{"id":"https://openalex.org/C55728118","wikidata":"https://www.wikidata.org/wiki/Q425402","display_name":"Metalloproteinase","level":3,"score":0.3059421181678772},{"id":"https://openalex.org/C109523444","wikidata":"https://www.wikidata.org/wiki/Q424216","display_name":"Matrix metalloproteinase","level":2,"score":0.0}],"mesh":[{"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011340","descriptor_name":"Problem Solving","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1011404","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1011404","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011404&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:37651409","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37651409","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:HAL:hal-04248728v1","is_oa":true,"landing_page_url":"https://inria.hal.science/hal-04248728","pdf_url":"https://inria.hal.science/hal-04248728/document","source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, 2023, 19 (8), pp.e1011404. &#x27E8;10.1371/journal.pcbi.1011404&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10499240","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10499240","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10499240/pdf/pcbi.1011404.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:9c1a1b04859040578efcd3e7f2373bb1","is_oa":true,"landing_page_url":"https://doaj.org/article/9c1a1b04859040578efcd3e7f2373bb1","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 19, Iss 8, p e1011404 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1011404","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1011404","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1011404&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/10","score":0.6800000071525574,"display_name":"Reduced inequalities"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320313934","display_name":"Institut national de recherche en informatique et en automatique (INRIA)","ror":"https://ror.org/02kvxyf05"},{"id":"https://openalex.org/F4320320893","display_name":"Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale","ror":"https://ror.org/02vjkv261"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"},{"id":"https://openalex.org/F4320324509","display_name":"Universit\u00e9 de Rennes 1","ror":"https://ror.org/015m7wh34"},{"id":"https://openalex.org/F4320327640","display_name":"\u00c9cole des Hautes \u00c9tudes en Sant\u00e9 Publique","ror":"https://ror.org/01sc83v92"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4386317727.pdf","grobid_xml":"https://content.openalex.org/works/W4386317727.grobid-xml"},"referenced_works_count":88,"referenced_works":["https://openalex.org/W228783596","https://openalex.org/W347661141","https://openalex.org/W1500518213","https://openalex.org/W1509333633","https://openalex.org/W1623345578","https://openalex.org/W1626846833","https://openalex.org/W1965706354","https://openalex.org/W1967293793","https://openalex.org/W1979430102","https://openalex.org/W1985474861","https://openalex.org/W1986014242","https://openalex.org/W1986072460","https://openalex.org/W1990014037","https://openalex.org/W1999497004","https://openalex.org/W2001139267","https://openalex.org/W2011227409","https://openalex.org/W2016498752","https://openalex.org/W2017644547","https://openalex.org/W2017774069","https://openalex.org/W2017879166","https://openalex.org/W2018029080","https://openalex.org/W2030989962","https://openalex.org/W2040263753","https://openalex.org/W2043703144","https://openalex.org/W2054508335","https://openalex.org/W2054683843","https://openalex.org/W2056251063","https://openalex.org/W2064297038","https://openalex.org/W2064459068","https://openalex.org/W2068886104","https://openalex.org/W2080297087","https://openalex.org/W2098127859","https://openalex.org/W2111211467","https://openalex.org/W2112537533","https://openalex.org/W2121535505","https://openalex.org/W2123811141","https://openalex.org/W2125810455","https://openalex.org/W2127648442","https://openalex.org/W2133032095","https://openalex.org/W2136022210","https://openalex.org/W2141052558","https://openalex.org/W2142113273","https://openalex.org/W2153749186","https://openalex.org/W2158266834","https://openalex.org/W2159675211","https://openalex.org/W2162977739","https://openalex.org/W2164978058","https://openalex.org/W2167455933","https://openalex.org/W2171411861","https://openalex.org/W2171815113","https://openalex.org/W2315407635","https://openalex.org/W2324743432","https://openalex.org/W2587304416","https://openalex.org/W2606376349","https://openalex.org/W2659780310","https://openalex.org/W2802889037","https://openalex.org/W2805257547","https://openalex.org/W2808194443","https://openalex.org/W2809247618","https://openalex.org/W2917606818","https://openalex.org/W2927961455","https://openalex.org/W2929095113","https://openalex.org/W2945333287","https://openalex.org/W2949567053","https://openalex.org/W2964484259","https://openalex.org/W2966899188","https://openalex.org/W2971317920","https://openalex.org/W2988396470","https://openalex.org/W2989608901","https://openalex.org/W3015248185","https://openalex.org/W3016216867","https://openalex.org/W3025383829","https://openalex.org/W3048090444","https://openalex.org/W3083338110","https://openalex.org/W3095583226","https://openalex.org/W3130649668","https://openalex.org/W3131602060","https://openalex.org/W3136256872","https://openalex.org/W3136774841","https://openalex.org/W3140997438","https://openalex.org/W3176749688","https://openalex.org/W3177828909","https://openalex.org/W3179636787","https://openalex.org/W3188258239","https://openalex.org/W3211280544","https://openalex.org/W4205383759","https://openalex.org/W4210278988","https://openalex.org/W4281790889"],"related_works":["https://openalex.org/W3030496443","https://openalex.org/W2026002230","https://openalex.org/W3144499377","https://openalex.org/W2392809711","https://openalex.org/W2989609610","https://openalex.org/W1971720270","https://openalex.org/W2941734048","https://openalex.org/W2463644649","https://openalex.org/W3186690237","https://openalex.org/W2036521446"],"abstract_inverted_index":{"Numerous":[0],"computational":[1],"methods":[2],"based":[3,38],"on":[4,39,199],"sequences":[5],"or":[6],"structures":[7],"have":[8],"been":[9],"developed":[10],"for":[11],"the":[12,25,41,53,62,74,105,125,140,144,150,157],"characterization":[13],"of":[14,28,43,56,64,66,107,115,135,143,152,159,169,188],"protein":[15,30],"function,":[16],"but":[17],"they":[18],"are":[19,102,118],"still":[20],"unsatisfactory":[21],"to":[22,73],"deal":[23],"with":[24,84,104,171],"multiple":[26,50],"functions":[27,201],"multi-domain":[29],"families.":[31],"Here":[32],"we":[33,95],"propose":[34],"an":[35],"original":[36],"approach":[37],"1)":[40],"detection":[42],"conserved":[44],"sequence":[45,98,181],"modules":[46,67],"using":[47],"partial":[48],"local":[49],"alignment,":[51],"2)":[52],"phylogenetic":[54],"inference":[55],"species/genes/modules/functions":[57],"evolutionary":[58],"histories,":[59],"and":[60,68,82,87,124,146,173,190,192,202],"3)":[61],"identification":[63],"co-appearances":[65],"functions.":[69],"Applying":[70],"our":[71,177],"framework":[72],"multidomain":[75],"ADAMTS-TSL":[76],"family":[77],"including":[78,93],"ADAMTS":[79,136,160,170,189],"(A":[80],"Disintegrin-like":[81],"Metalloproteinase":[83],"ThromboSpondin":[85],"motif)":[86],"ADAMTS-like":[88],"proteins":[89],"over":[90],"nine":[91],"species":[92],"human,":[94],"identify":[96],"45":[97],"module":[99,133,182],"signatures":[100,117,134,183],"that":[101,184,193],"associated":[103],"occurrence":[106],"278":[108],"Protein-Protein":[109],"Interactions":[110],"in":[111,156],"ancestral":[112],"genes.":[113],"Some":[114],"these":[116,153],"supported":[119],"by":[120],"published":[121],"experimental":[122],"data":[123],"others":[126],"provide":[127],"new":[128],"insights":[129],"(e.g.":[130],"ADAMTS-5).":[131],"The":[132],"ancestors":[137],"notably":[138],"highlight":[139],"dual":[141],"variability":[142],"propeptide":[145],"ancillary":[147],"regions":[148,155],"suggesting":[149],"importance":[151],"two":[154],"specialization":[158],"during":[161],"evolution.":[162],"Our":[163],"analyses":[164],"further":[165],"indicate":[166],"convergent":[167],"interactions":[168],"COMP":[172],"CCN2":[174],"proteins.":[175],"Overall,":[176],"study":[178],"provides":[179],"186":[180],"discriminate":[185],"distinct":[186],"subgroups":[187],"ADAMTSL":[191],"may":[194],"result":[195],"from":[196],"selective":[197],"pressures":[198],"novel":[200],"phenotypes.":[203]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-08-19T15:00:24.278416","created_date":"2025-10-10T00:00:00"}
