{"id":"https://openalex.org/W2290466891","doi":"https://doi.org/10.1186/s12859-015-0855-y","title":"Dissecting protein architecture with communication blocks and communicating segment pairs","display_name":"Dissecting protein architecture with communication blocks and communicating segment pairs","publication_year":2016,"publication_date":"2016-01-20","ids":{"openalex":"https://openalex.org/W2290466891","doi":"https://doi.org/10.1186/s12859-015-0855-y","mag":"2290466891","pmid":"https://pubmed.ncbi.nlm.nih.gov/26823083"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-015-0855-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0855-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0855-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0855-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040990618","display_name":"Yasaman Karami","orcid":"https://orcid.org/0000-0001-8413-2665"},"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/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210097156","display_name":"Biologie Computationnelle, Quantitative et Synth\u00e9tique","ror":"https://ror.org/00pcqj134","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210097156"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Yasaman Karami","raw_affiliation_strings":["Sorbonne Universit\u00e9s, UPMC Univ Paris 06, ICS, Paris, 75005, France. Yasaman.Karami@upmc.fr","Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France. Yasaman.Karami@upmc.fr","Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Sorbonne Universit\u00e9s, UPMC Univ Paris 06, ICS, Paris, 75005, France. Yasaman.Karami@upmc.fr","institution_ids":["https://openalex.org/I39804081","https://openalex.org/I204730241"]},{"raw_affiliation_string":"Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France. Yasaman.Karami@upmc.fr","institution_ids":["https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France","institution_ids":["https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076453514","display_name":"\u00c9lodie Laine","orcid":"https://orcid.org/0000-0003-4870-6304"},"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/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210097156","display_name":"Biologie Computationnelle, Quantitative et Synth\u00e9tique","ror":"https://ror.org/00pcqj134","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210097156"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Elodie Laine","raw_affiliation_strings":["Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France. elodie.laine@upmc.fr","Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France. elodie.laine@upmc.fr","institution_ids":["https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France","institution_ids":["https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038174177","display_name":"Alessandra Carbone","orcid":"https://orcid.org/0000-0003-2098-5743"},"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/I185839726","display_name":"Institut Universitaire de France","ror":"https://ror.org/055khg266","country_code":"FR","type":"education","lineage":["https://openalex.org/I185839726"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210097156","display_name":"Biologie Computationnelle, Quantitative et Synth\u00e9tique","ror":"https://ror.org/00pcqj134","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210097156"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Alessandra Carbone","raw_affiliation_strings":["Institut Universitaire de France, Paris, 75005, France. Alessandra.Carbone@lip6.fr","Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France. Alessandra.Carbone@lip6.fr","Institut Universitaire de France, Paris, 75005, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut Universitaire de France, Paris, 75005, France. Alessandra.Carbone@lip6.fr","institution_ids":["https://openalex.org/I185839726"]},{"raw_affiliation_string":"Sorbonne Universit\u00e9s, UPMC-Univ P6, CNRS, Laboratoire de Biologie Computationnelle et Quantitative - UMR 7238, 15 rue de l'Ecole de M\u00e9decine, Paris, 75006, France. Alessandra.Carbone@lip6.fr","institution_ids":["https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Institut Universitaire de France, Paris, 75005, France","institution_ids":["https://openalex.org/I185839726"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5038174177"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I185839726","https://openalex.org/I39804081","https://openalex.org/I4210097156"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.6111,"has_fulltext":true,"cited_by_count":30,"citation_normalized_percentile":{"value":0.89492875,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"17","issue":"S2","first_page":"13","last_page":"13"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.6858000159263611,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.6858000159263611,"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"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.06019999831914902,"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"}},{"id":"https://openalex.org/T10492","display_name":"Microtubule and mitosis dynamics","score":0.03539999946951866,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/allosteric-regulation","display_name":"Allosteric regulation","score":0.7114772796630859},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.636766791343689},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6210259199142456},{"id":"https://openalex.org/keywords/decipher","display_name":"DECIPHER","score":0.6062127947807312},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.5466573238372803},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4886396527290344},{"id":"https://openalex.org/keywords/molecular-communication","display_name":"Molecular communication","score":0.47020822763442993},{"id":"https://openalex.org/keywords/protein-dynamics","display_name":"Protein dynamics","score":0.46305418014526367},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.43501579761505127},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4138787090778351},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3976343274116516},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.34601110219955444},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.34569263458251953},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.33693546056747437},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2255946695804596},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.15154612064361572},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14751306176185608},{"id":"https://openalex.org/keywords/channel","display_name":"Channel (broadcasting)","score":0.11447614431381226}],"concepts":[{"id":"https://openalex.org/C166342909","wikidata":"https://www.wikidata.org/wiki/Q845326","display_name":"Allosteric regulation","level":3,"score":0.7114772796630859},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.636766791343689},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6210259199142456},{"id":"https://openalex.org/C164614171","wikidata":"https://www.wikidata.org/wiki/Q5204775","display_name":"DECIPHER","level":2,"score":0.6062127947807312},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.5466573238372803},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4886396527290344},{"id":"https://openalex.org/C2779767902","wikidata":"https://www.wikidata.org/wiki/Q17037278","display_name":"Molecular communication","level":4,"score":0.47020822763442993},{"id":"https://openalex.org/C2775981520","wikidata":"https://www.wikidata.org/wiki/Q17156992","display_name":"Protein dynamics","level":3,"score":0.46305418014526367},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.43501579761505127},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4138787090778351},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3976343274116516},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.34601110219955444},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.34569263458251953},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.33693546056747437},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2255946695804596},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.15154612064361572},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14751306176185608},{"id":"https://openalex.org/C127162648","wikidata":"https://www.wikidata.org/wiki/Q16858953","display_name":"Channel (broadcasting)","level":2,"score":0.11447614431381226},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C47798520","wikidata":"https://www.wikidata.org/wiki/Q190157","display_name":"Transmitter","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000494","descriptor_name":"Allosteric Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000494","descriptor_name":"Allosteric Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000494","descriptor_name":"Allosteric Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001331","descriptor_name":"Automation","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":"D009038","descriptor_name":"Motion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009038","descriptor_name":"Motion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009038","descriptor_name":"Motion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013205","descriptor_name":"Staphylococcal Protein A","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013205","descriptor_name":"Staphylococcal Protein A","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013205","descriptor_name":"Staphylococcal Protein A","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019009","descriptor_name":"Proto-Oncogene Proteins c-kit","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019009","descriptor_name":"Proto-Oncogene Proteins c-kit","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019009","descriptor_name":"Proto-Oncogene Proteins c-kit","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-015-0855-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0855-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0855-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26823083","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26823083","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:HAL:hal-01260475v1","is_oa":true,"landing_page_url":"https://hal.sorbonne-universite.fr/hal-01260475","pdf_url":null,"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":"BMC Bioinformatics, 2016, 17 (S2), pp.133-148. &#x27E8;10.1186/s12859-015-0855-y&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:europepmc.org:3931789","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4959365","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-015-0855-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0855-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0855-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.4399999976158142}],"awards":[{"id":"https://openalex.org/G1789083493","display_name":"LABEX pour la mod\u00e9lisation et la simulation scientifiques en recherche","funder_award_id":"ANR-11-LABX-0037","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G3183336939","display_name":null,"funder_award_id":"ANR-11-BINF-0003","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G3465563395","display_name":null,"funder_award_id":"ANR-11-LABX-0037-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G4009746975","display_name":null,"funder_award_id":"ANR-11-IDEX-0004-02","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G4866930200","display_name":null,"funder_award_id":"ANR-11-IDEX","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G5003875507","display_name":null,"funder_award_id":"-11-IDEX-0004-02","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G5043543010","display_name":null,"funder_award_id":"10-EQPX-29-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G5615659713","display_name":null,"funder_award_id":"IDEX-0004-02","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6182026652","display_name":null,"funder_award_id":"11-IDEX-0004","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6246589203","display_name":null,"funder_award_id":"11-IDEX-0004-02","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6654833908","display_name":null,"funder_award_id":"ANR-11-IDEX-0004","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G676769616","display_name":null,"funder_award_id":"ANR-10-EQPX-29-01","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7240651115","display_name":null,"funder_award_id":"ANR-10","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G8510727784","display_name":null,"funder_award_id":"ANR-10-EQPX","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320322893","display_name":"Institut Universitaire de France","ror":"https://ror.org/055khg266"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2290466891.pdf","grobid_xml":"https://content.openalex.org/works/W2290466891.grobid-xml"},"referenced_works_count":71,"referenced_works":["https://openalex.org/W255996521","https://openalex.org/W1514031343","https://openalex.org/W1650797637","https://openalex.org/W1981122373","https://openalex.org/W1981263669","https://openalex.org/W1986719264","https://openalex.org/W1991091416","https://openalex.org/W1991669238","https://openalex.org/W1992945955","https://openalex.org/W1994941561","https://openalex.org/W1998093640","https://openalex.org/W2007268492","https://openalex.org/W2008708467","https://openalex.org/W2011050576","https://openalex.org/W2011305816","https://openalex.org/W2016518678","https://openalex.org/W2020622784","https://openalex.org/W2023706146","https://openalex.org/W2028415754","https://openalex.org/W2030608968","https://openalex.org/W2033353305","https://openalex.org/W2034335825","https://openalex.org/W2035266068","https://openalex.org/W2037551643","https://openalex.org/W2038930664","https://openalex.org/W2040842710","https://openalex.org/W2043224156","https://openalex.org/W2045502645","https://openalex.org/W2048206836","https://openalex.org/W2048822589","https://openalex.org/W2049507332","https://openalex.org/W2049598343","https://openalex.org/W2051628563","https://openalex.org/W2058576027","https://openalex.org/W2062505999","https://openalex.org/W2067174909","https://openalex.org/W2070696305","https://openalex.org/W2071777829","https://openalex.org/W2072724036","https://openalex.org/W2073728244","https://openalex.org/W2075904639","https://openalex.org/W2076947916","https://openalex.org/W2078419867","https://openalex.org/W2081288740","https://openalex.org/W2094795801","https://openalex.org/W2095420958","https://openalex.org/W2098055675","https://openalex.org/W2101414808","https://openalex.org/W2103388411","https://openalex.org/W2103473238","https://openalex.org/W2104014368","https://openalex.org/W2108401821","https://openalex.org/W2109998141","https://openalex.org/W2114520383","https://openalex.org/W2116978122","https://openalex.org/W2118460316","https://openalex.org/W2121400889","https://openalex.org/W2130479394","https://openalex.org/W2132437319","https://openalex.org/W2133959309","https://openalex.org/W2136141445","https://openalex.org/W2141205833","https://openalex.org/W2141960720","https://openalex.org/W2142544064","https://openalex.org/W2147988069","https://openalex.org/W2148866967","https://openalex.org/W2157419538","https://openalex.org/W2167904135","https://openalex.org/W2316424881","https://openalex.org/W4240895940","https://openalex.org/W4298298418"],"related_works":["https://openalex.org/W4366407519","https://openalex.org/W2474016806","https://openalex.org/W2073871758","https://openalex.org/W2108284748","https://openalex.org/W2003412353","https://openalex.org/W1900212418","https://openalex.org/W4220959342","https://openalex.org/W2010384662","https://openalex.org/W2016704325","https://openalex.org/W4390520644"],"abstract_inverted_index":{"BACKGROUND:":[0],"Proteins":[1],"adapt":[2],"to":[3,21,34,54,102,138,158,184,196,220],"environmental":[4],"conditions":[5],"by":[6,108,135],"changing":[7],"their":[8],"shape":[9],"and":[10,41,95,114,118,122,131,149,195],"motions.":[11],"Characterising":[12],"protein":[13,90,143,177,192],"conformational":[14,28],"dynamics":[15,72],"is":[16,182,208,217],"increasingly":[17],"recognised":[18],"as":[19],"necessary":[20],"understand":[22],"how":[23],"proteins":[24,169],"function.":[25],"Given":[26],"a":[27,37,49,60,79,161,188,204,209],"ensemble,":[29],"computational":[30],"tools":[31],"are":[32],"needed":[33],"extract":[35],"in":[36,78,160,178,191,203],"systematic":[38],"way":[39,163],"pertinent":[40],"comprehensive":[42],"biological":[43],"information.":[44],"RESULTS:":[45],"Here,":[46],"we":[47],"present":[48],"method,":[50],"Communication":[51],"Mapping":[52],"(COMMA),":[53],"decipher":[55],"the":[56,104,120,129,145,150,164,175,198,221],"dynamical":[57,165],"architecture":[58],"of":[59,87,133,168,174,200],"protein.":[61],"The":[62],"method":[63,156],"first":[64],"extracts":[65],"residue-based":[66],"dynamic":[67],"properties":[68],"from":[69],"all-atom":[70],"molecular":[71],"simulations.":[73],"Then,":[74],"it":[75,84,137],"integrates":[76],"them":[77],"graph":[80],"theoretic":[81],"framework,":[82],"where":[83],"identifies":[85],"groups":[86],"residues":[88,186],"or":[89,173],"regions":[91],"that":[92],"mediate":[93],"short-":[94],"long-range":[96],"communication.":[97],"COMMA":[98,134,207],"introduces":[99],"original":[100],"concepts":[101],"contrast":[103],"different":[105,171,179],"roles":[106],"played":[107],"these":[109],"regions,":[110],"namely":[111,142],"communication":[112,123],"blocks":[113],"communicating":[115],"segment":[116],"pairs,":[117],"evaluates":[119],"connections":[121],"strengths":[124],"between":[125],"them.":[126],"We":[127],"show":[128],"utility":[130],"capabilities":[132],"applying":[136],"three":[139],"archetypal":[140],"proteins,":[141],"A,":[144],"tyrosine":[146],"kinase":[147],"KIT":[148],"tumour":[151],"suppressor":[152],"p53.":[153],"CONCLUSION:":[154],"Our":[155],"permits":[157],"compare":[159],"direct":[162],"behaviour":[166],"either":[167],"with":[170,213],"characteristics":[172],"same":[176],"conditions.":[180],"It":[181,216],"useful":[183],"identify":[185],"playing":[187],"key":[189],"role":[190],"allosteric":[193],"regulation":[194],"explain":[197],"effects":[199],"deleterious":[201],"mutations":[202],"mechanistic":[205],"way.":[206],"fully":[210],"automated":[211],"tool":[212],"broad":[214],"applicability.":[215],"freely":[218],"available":[219],"community":[222],"at":[223],"www.lcqb.upmc.fr/COMMA":[224],".":[225]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
