{"id":"https://openalex.org/W2944202352","doi":"https://doi.org/10.1093/bioinformatics/btz386","title":"CaverDock: a molecular docking-based tool to analyse ligand transport through protein tunnels and channels","display_name":"CaverDock: a molecular docking-based tool to analyse ligand transport through protein tunnels and channels","publication_year":2019,"publication_date":"2019-05-06","ids":{"openalex":"https://openalex.org/W2944202352","doi":"https://doi.org/10.1093/bioinformatics/btz386","mag":"2944202352","pmid":"https://pubmed.ncbi.nlm.nih.gov/31077297"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz386","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz386","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/23/4986/48978383/bioinformatics_35_23_4986.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/23/4986/48978383/bioinformatics_35_23_4986.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021514188","display_name":"Ond\u0159ej V\u00e1vra","orcid":"https://orcid.org/0000-0003-1396-2543"},"institutions":[{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]},{"id":"https://openalex.org/I4210136987","display_name":"St. Anne's University Hospital Brno","ror":"https://ror.org/049bjee35","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210136987"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Ondrej Vavra","raw_affiliation_strings":["International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","institution_ids":["https://openalex.org/I4210102302","https://openalex.org/I4210136987"]},{"raw_affiliation_string":"Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089216324","display_name":"Ji\u0159\u00ed Filipovi\u010d","orcid":"https://orcid.org/0000-0002-5703-9673"},"institutions":[{"id":"https://openalex.org/I4210155092","display_name":"Czech Academy of Sciences, Institute of Computer Science","ror":"https://ror.org/0496n6574","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210155092"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Jiri Filipovic","raw_affiliation_strings":["Institute of Computer Science, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Institute of Computer Science, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210155092"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014123660","display_name":"Jan Plh\u00e1k","orcid":null},"institutions":[{"id":"https://openalex.org/I4210155092","display_name":"Czech Academy of Sciences, Institute of Computer Science","ror":"https://ror.org/0496n6574","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210155092"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Jan Plhak","raw_affiliation_strings":["Institute of Computer Science, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Institute of Computer Science, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210155092"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003693498","display_name":"David Bedn\u00e1\u0159","orcid":"https://orcid.org/0000-0002-6803-0340"},"institutions":[{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]},{"id":"https://openalex.org/I4210136987","display_name":"St. Anne's University Hospital Brno","ror":"https://ror.org/049bjee35","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210136987"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"David Bednar","raw_affiliation_strings":["International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","institution_ids":["https://openalex.org/I4210102302","https://openalex.org/I4210136987"]},{"raw_affiliation_string":"Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025152279","display_name":"S\u00e9rgio M. Marques","orcid":"https://orcid.org/0000-0002-6281-7505"},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4210136987","display_name":"St. Anne's University Hospital Brno","ror":"https://ror.org/049bjee35","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210136987"]},{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Sergio M Marques","raw_affiliation_strings":["International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","institution_ids":["https://openalex.org/I4210102302","https://openalex.org/I4210136987"]},{"raw_affiliation_string":"Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000513864","display_name":"Jan Brezovsk\u00fd","orcid":"https://orcid.org/0000-0001-9677-5078"},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Jan Brezovsky","raw_affiliation_strings":["Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083252823","display_name":"Jan \u0160toura\u010d","orcid":"https://orcid.org/0000-0003-3139-3700"},"institutions":[{"id":"https://openalex.org/I4210136987","display_name":"St. Anne's University Hospital Brno","ror":"https://ror.org/049bjee35","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210136987"]},{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Jan Stourac","raw_affiliation_strings":["International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","institution_ids":["https://openalex.org/I4210102302","https://openalex.org/I4210136987"]},{"raw_affiliation_string":"Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005207700","display_name":"Lud\u011bk Matyska","orcid":"https://orcid.org/0000-0001-6399-5453"},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4210155092","display_name":"Czech Academy of Sciences, Institute of Computer Science","ror":"https://ror.org/0496n6574","country_code":"CZ","type":"facility","lineage":["https://openalex.org/I202391551","https://openalex.org/I4210155092"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Ludek Matyska","raw_affiliation_strings":["Institute of Computer Science, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Institute of Computer Science, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210155092"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040585952","display_name":"Ji\u0159\u0131\u0301 Damborsk\u00fd","orcid":"https://orcid.org/0000-0002-7848-8216"},"institutions":[{"id":"https://openalex.org/I4210102302","display_name":"University Hospital Brno","ror":"https://ror.org/00qq1fp34","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210102302"]},{"id":"https://openalex.org/I4210136987","display_name":"St. Anne's University Hospital Brno","ror":"https://ror.org/049bjee35","country_code":"CZ","type":"healthcare","lineage":["https://openalex.org/I4210136987"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Jiri Damborsky","raw_affiliation_strings":["International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"International Centre for Clinical Research, St. Anne\u2019s University Hospital Brno , Brno, Czech Republic","institution_ids":["https://openalex.org/I4210102302","https://openalex.org/I4210136987"]},{"raw_affiliation_string":"Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Masaryk University , Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5000513864","https://openalex.org/A5040585952"],"corresponding_institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4210102302","https://openalex.org/I4210136987"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.1777,"has_fulltext":true,"cited_by_count":84,"citation_normalized_percentile":{"value":0.92774925,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"35","issue":"23","first_page":"4986","last_page":"4993"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9994999766349792,"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":0.9994999766349792,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9933000206947327,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9919000267982483,"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/computer-science","display_name":"Computer science","score":0.6681572794914246},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.654825747013092},{"id":"https://openalex.org/keywords/usability","display_name":"Usability","score":0.6352719068527222},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.560068666934967},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5198317170143127},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.4399174749851227},{"id":"https://openalex.org/keywords/heuristic","display_name":"Heuristic","score":0.433674156665802},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.42603519558906555},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.4257635474205017},{"id":"https://openalex.org/keywords/protein\u2013ligand-docking","display_name":"Protein\u2013ligand docking","score":0.41111087799072266},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.33744892477989197},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2081226408481598},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1831323802471161},{"id":"https://openalex.org/keywords/virtual-screening","display_name":"Virtual screening","score":0.17035821080207825},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.15211498737335205},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.12027531862258911},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.09627857804298401}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6681572794914246},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.654825747013092},{"id":"https://openalex.org/C170130773","wikidata":"https://www.wikidata.org/wiki/Q216378","display_name":"Usability","level":2,"score":0.6352719068527222},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.560068666934967},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5198317170143127},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.4399174749851227},{"id":"https://openalex.org/C173801870","wikidata":"https://www.wikidata.org/wiki/Q201413","display_name":"Heuristic","level":2,"score":0.433674156665802},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.42603519558906555},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.4257635474205017},{"id":"https://openalex.org/C77319485","wikidata":"https://www.wikidata.org/wiki/Q7251520","display_name":"Protein\u2013ligand docking","level":4,"score":0.41111087799072266},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.33744892477989197},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2081226408481598},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1831323802471161},{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.17035821080207825},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.15211498737335205},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.12027531862258911},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.09627857804298401},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"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":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btz386","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz386","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/23/4986/48978383/bioinformatics_35_23_4986.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31077297","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31077297","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:is.muni.cz:1544936","is_oa":false,"landing_page_url":"https://is.muni.cz/publication/1544936","pdf_url":null,"source":{"id":"https://openalex.org/S4306400102","display_name":"Ve\u0159ejn\u00e9 slu\u017eby Informa\u010dn\u00edho syst\u00e9mu (Masarykiana Brunensis Universitas)","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz386","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz386","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/23/4986/48978383/bioinformatics_35_23_4986.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.4099999964237213}],"awards":[{"id":"https://openalex.org/G2270135567","display_name":null,"funder_award_id":"CZ.02.1.01/0.0/0.0/16_019/0000868","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3013867276","display_name":null,"funder_award_id":"722610","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3622461675","display_name":null,"funder_award_id":"CZ.02.1.01","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3848536208","display_name":null,"funder_award_id":"CZ.02.1.01/0.0/0.0/16_013/0001761","funder_id":"https://openalex.org/F4320326548","funder_display_name":"Masarykova Univerzita"},{"id":"https://openalex.org/G400991733","display_name":null,"funder_award_id":"CZ.02.1.01/0.0/0.0/16_013/0001761","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5011736886","display_name":null,"funder_award_id":"M2015","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5698201468","display_name":null,"funder_award_id":"814418","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G7626621149","display_name":null,"funder_award_id":"720776","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320326548","display_name":"Masarykova Univerzita","ror":"https://ror.org/02j46qs45"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2944202352.pdf","grobid_xml":"https://content.openalex.org/works/W2944202352.grobid-xml"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W1500927176","https://openalex.org/W1678327261","https://openalex.org/W1910564820","https://openalex.org/W1963892699","https://openalex.org/W1968438069","https://openalex.org/W1969951206","https://openalex.org/W1988122552","https://openalex.org/W1988936361","https://openalex.org/W2003240840","https://openalex.org/W2005862188","https://openalex.org/W2006283486","https://openalex.org/W2009297402","https://openalex.org/W2028046413","https://openalex.org/W2030623529","https://openalex.org/W2031130609","https://openalex.org/W2031142437","https://openalex.org/W2052773830","https://openalex.org/W2074512072","https://openalex.org/W2074595689","https://openalex.org/W2079197830","https://openalex.org/W2091392856","https://openalex.org/W2095677518","https://openalex.org/W2105668062","https://openalex.org/W2108570684","https://openalex.org/W2117057687","https://openalex.org/W2119317961","https://openalex.org/W2122797035","https://openalex.org/W2127803531","https://openalex.org/W2130479394","https://openalex.org/W2134967712","https://openalex.org/W2136783299","https://openalex.org/W2137825366","https://openalex.org/W2144000913","https://openalex.org/W2146878206","https://openalex.org/W2147421370","https://openalex.org/W2154139219","https://openalex.org/W2155758860","https://openalex.org/W2161104561","https://openalex.org/W2169127893","https://openalex.org/W2176516200","https://openalex.org/W2360686623","https://openalex.org/W2521101013","https://openalex.org/W2555282473","https://openalex.org/W2600773364","https://openalex.org/W2601699215","https://openalex.org/W2789293857","https://openalex.org/W2889696754","https://openalex.org/W3150997492","https://openalex.org/W4210702584","https://openalex.org/W4237142329","https://openalex.org/W6754331292"],"related_works":["https://openalex.org/W1581147483","https://openalex.org/W4310018788","https://openalex.org/W2329052364","https://openalex.org/W2417162538","https://openalex.org/W1567411871","https://openalex.org/W2162967120","https://openalex.org/W2221759783","https://openalex.org/W2301625241","https://openalex.org/W2072180710","https://openalex.org/W2794807012"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":16},{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":16},{"year":2019,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}