{"id":"https://openalex.org/W2921236434","doi":"https://doi.org/10.1093/bioinformatics/btz185","title":"CABS-dock standalone: a toolbox for flexible protein\u2013peptide docking","display_name":"CABS-dock standalone: a toolbox for flexible protein\u2013peptide docking","publication_year":2019,"publication_date":"2019-03-12","ids":{"openalex":"https://openalex.org/W2921236434","doi":"https://doi.org/10.1093/bioinformatics/btz185","mag":"2921236434","pmid":"https://pubmed.ncbi.nlm.nih.gov/30865258"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz185","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz185","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/20/4170/30148329/btz185.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/20/4170/30148329/btz185.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023082406","display_name":"Mateusz Kurci\u0144ski","orcid":"https://orcid.org/0000-0002-5385-2069"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Mateusz Kurcinski","raw_affiliation_strings":["Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044774288","display_name":"Maciej Pawe\u0142 Ciemny","orcid":null},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Maciej Pawel Ciemny","raw_affiliation_strings":["Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","University of Warsaw Faculty of Physics, , Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"University of Warsaw Faculty of Physics, , Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025389234","display_name":"Tymoteusz Oleniecki","orcid":null},"institutions":[{"id":"https://openalex.org/I4210161028","display_name":"College of Europe, Warsaw","ror":"https://ror.org/055560x25","country_code":"PL","type":"education","lineage":["https://openalex.org/I172363630","https://openalex.org/I4210161028"]},{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Tymoteusz Oleniecki","raw_affiliation_strings":["Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","College of Inter-Faculty Individual Studies in Mathematics and Natural Sciences, University of Warsaw , Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"College of Inter-Faculty Individual Studies in Mathematics and Natural Sciences, University of Warsaw , Warsaw, Poland","institution_ids":["https://openalex.org/I4210161028","https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078317077","display_name":"Aleksander Kuriata","orcid":null},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Aleksander Kuriata","raw_affiliation_strings":["Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036112045","display_name":"Aleksandra E. Badaczewska-Dawid","orcid":"https://orcid.org/0000-0003-1832-4364"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Aleksandra E Badaczewska-Dawid","raw_affiliation_strings":["Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025085688","display_name":"Andrzej Koli\u0144ski","orcid":"https://orcid.org/0000-0002-8830-2315"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Andrzej Kolinski","raw_affiliation_strings":["Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006850152","display_name":"Sebastian Kmiecik","orcid":"https://orcid.org/0000-0001-7623-0935"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":true,"raw_author_name":"Sebastian Kmiecik","raw_affiliation_strings":["Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre , Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5006850152"],"corresponding_institution_ids":["https://openalex.org/I4654613"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":4.342,"has_fulltext":true,"cited_by_count":93,"citation_normalized_percentile":{"value":0.9546085,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"35","issue":"20","first_page":"4170","last_page":"4172"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12505","display_name":"Peptidase Inhibition and Analysis","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T12505","display_name":"Peptidase Inhibition and Analysis","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9973000288009644,"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/dock","display_name":"DOCK","score":0.970496654510498},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.7612656354904175},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7170120477676392},{"id":"https://openalex.org/keywords/toolbox","display_name":"Toolbox","score":0.5786834955215454},{"id":"https://openalex.org/keywords/fortran","display_name":"Fortran","score":0.51704341173172},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.5151363611221313},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.4961763322353363},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4646233022212982},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4462684690952301},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.3262280523777008},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.1692613661289215}],"concepts":[{"id":"https://openalex.org/C93073132","wikidata":"https://www.wikidata.org/wiki/Q24726581","display_name":"DOCK","level":2,"score":0.970496654510498},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.7612656354904175},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7170120477676392},{"id":"https://openalex.org/C2777655017","wikidata":"https://www.wikidata.org/wiki/Q1501161","display_name":"Toolbox","level":2,"score":0.5786834955215454},{"id":"https://openalex.org/C2778241615","wikidata":"https://www.wikidata.org/wiki/Q83303","display_name":"Fortran","level":2,"score":0.51704341173172},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.5151363611221313},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.4961763322353363},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4646233022212982},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4462684690952301},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.3262280523777008},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.1692613661289215},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C199104240","wikidata":"https://www.wikidata.org/wiki/Q118291","display_name":"Marine engineering","level":1,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0}],"mesh":[{"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":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","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/btz185","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz185","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/20/4170/30148329/btz185.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30865258","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30865258","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:pubmedcentral.nih.gov:6792116","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6792116","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz185","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz185","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/20/4170/30148329/btz185.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure","score":0.44999998807907104}],"awards":[{"id":"https://openalex.org/G7498255409","display_name":null,"funder_award_id":"MAESTRO2014/14/A/ST6/00088","funder_id":"https://openalex.org/F4320322511","funder_display_name":"Narodowe Centrum Nauki"}],"funders":[{"id":"https://openalex.org/F4320322511","display_name":"Narodowe Centrum Nauki","ror":"https://ror.org/03ha2q922"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2921236434.pdf","grobid_xml":"https://content.openalex.org/works/W2921236434.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W95014119","https://openalex.org/W1527813693","https://openalex.org/W1938743025","https://openalex.org/W2128577591","https://openalex.org/W2143094533","https://openalex.org/W2395175315","https://openalex.org/W2413334978","https://openalex.org/W2529012354","https://openalex.org/W2557504279","https://openalex.org/W2590125722","https://openalex.org/W2748937072","https://openalex.org/W2800677598","https://openalex.org/W2886024678","https://openalex.org/W2891884829","https://openalex.org/W3104051198","https://openalex.org/W4244821183","https://openalex.org/W6753814878","https://openalex.org/W6754753647"],"related_works":["https://openalex.org/W2808384273","https://openalex.org/W759941183","https://openalex.org/W2022220038","https://openalex.org/W4225714443","https://openalex.org/W2357049710","https://openalex.org/W2157449552","https://openalex.org/W4307042101","https://openalex.org/W2380145268","https://openalex.org/W2549786917","https://openalex.org/W2789551765"],"abstract_inverted_index":{"CABS-dock":[0,24,47],"standalone":[1,25,48],"is":[2,9,17],"distributed":[3],"under":[4],"the":[5,46],"MIT":[6],"licence,":[7],"which":[8],"free":[10],"for":[11,38],"academic":[12],"and":[13,21,31,35,41],"non-profit":[14],"users.":[15],"It":[16],"implemented":[18],"in":[19,45],"Python":[20],"Fortran.":[22],"The":[23],"source":[26],"code,":[27],"wiki":[28],"with":[29],"documentation":[30],"examples":[32],"of":[33],"use":[34],"installation":[36],"instructions":[37],"Linux,":[39],"macOS":[40],"Windows":[42],"are":[43],"available":[44],"repository":[49],"at":[50],"https://bitbucket.org/lcbio/cabsdock.":[51]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":16},{"year":2024,"cited_by_count":16},{"year":2023,"cited_by_count":14},{"year":2022,"cited_by_count":15},{"year":2021,"cited_by_count":14},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":7}],"updated_date":"2026-04-17T18:11:37.981687","created_date":"2025-10-10T00:00:00"}
