{"id":"https://openalex.org/W2166225722","doi":"https://doi.org/10.1093/bioinformatics/btp599","title":"Roll: a new algorithm for the detection of protein pockets and cavities with a rolling probe sphere","display_name":"Roll: a new algorithm for the detection of protein pockets and cavities with a rolling probe sphere","publication_year":2009,"publication_date":"2009-10-21","ids":{"openalex":"https://openalex.org/W2166225722","doi":"https://doi.org/10.1093/bioinformatics/btp599","mag":"2166225722","pmid":"https://pubmed.ncbi.nlm.nih.gov/19846440"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp599","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp599","pdf_url":null,"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":"green","oa_url":"https://eprints.lib.hokudai.ac.jp/repo/huscap/all/44622/Supplementary_file.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101970582","display_name":"Jian Yu","orcid":"https://orcid.org/0009-0009-9041-7507"},"institutions":[{"id":"https://openalex.org/I205349734","display_name":"Hokkaido University","ror":"https://ror.org/02e16g702","country_code":"JP","type":"education","lineage":["https://openalex.org/I205349734"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Jian Yu","raw_affiliation_strings":["Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan"],"affiliations":[{"raw_affiliation_string":"Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan","institution_ids":["https://openalex.org/I205349734"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101984500","display_name":"Yong Zhou","orcid":"https://orcid.org/0000-0002-7449-0538"},"institutions":[{"id":"https://openalex.org/I205349734","display_name":"Hokkaido University","ror":"https://ror.org/02e16g702","country_code":"JP","type":"education","lineage":["https://openalex.org/I205349734"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yong Zhou","raw_affiliation_strings":["Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan"],"affiliations":[{"raw_affiliation_string":"Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan","institution_ids":["https://openalex.org/I205349734"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020556619","display_name":"Isao Tanaka","orcid":"https://orcid.org/0000-0002-2736-7107"},"institutions":[{"id":"https://openalex.org/I205349734","display_name":"Hokkaido University","ror":"https://ror.org/02e16g702","country_code":"JP","type":"education","lineage":["https://openalex.org/I205349734"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Isao Tanaka","raw_affiliation_strings":["Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan"],"affiliations":[{"raw_affiliation_string":"Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan","institution_ids":["https://openalex.org/I205349734"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022233637","display_name":"Min Yao","orcid":"https://orcid.org/0000-0003-1687-5904"},"institutions":[{"id":"https://openalex.org/I205349734","display_name":"Hokkaido University","ror":"https://ror.org/02e16g702","country_code":"JP","type":"education","lineage":["https://openalex.org/I205349734"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Min Yao","raw_affiliation_strings":["Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan"],"affiliations":[{"raw_affiliation_string":"Graduate School of Life Science, Hokkaido University, Kita-Ku Kita-10 Nishi-8, Sapporo, 0600810, Japan","institution_ids":["https://openalex.org/I205349734"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5022233637"],"corresponding_institution_ids":["https://openalex.org/I205349734"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.6957,"has_fulltext":true,"cited_by_count":392,"citation_normalized_percentile":{"value":0.90488029,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"26","issue":"1","first_page":"46","last_page":"52"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9987999796867371,"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":0.9987999796867371,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9977999925613403,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","score":0.9944000244140625,"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/docking","display_name":"Docking (animal)","score":0.6062912940979004},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.5766968131065369},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5469624400138855},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5040663480758667},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.4292721152305603},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2774156332015991},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1377023160457611},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.12402492761611938},{"id":"https://openalex.org/keywords/receptor","display_name":"Receptor","score":0.08418920636177063}],"concepts":[{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.6062912940979004},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.5766968131065369},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5469624400138855},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5040663480758667},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.4292721152305603},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2774156332015991},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1377023160457611},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.12402492761611938},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.08418920636177063},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","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":"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":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btp599","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp599","pdf_url":null,"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:19846440","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19846440","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:irdb.nii.ac.jp:01364:0007164125","is_oa":true,"landing_page_url":"https://hdl.handle.net/2115/44622","pdf_url":"https://eprints.lib.hokudai.ac.jp/repo/huscap/all/44622/Supplementary_file.pdf","source":{"id":"https://openalex.org/S7407056385","display_name":"Institutional Repositories DataBase (IRDB)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I184597095","host_organization_name":"National Institute of Informatics","host_organization_lineage":["https://openalex.org/I184597095"],"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":"journal article"},{"id":"pmh:oai:eprints.lib.hokudai.ac.jp:2115/44622","is_oa":false,"landing_page_url":"http://hdl.handle.net/2115/44622","pdf_url":null,"source":{"id":"https://openalex.org/S4306400549","display_name":"Hokkaido University Collection of Scholarly and Academic Papers (Hokkaido University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205349734","host_organization_name":"Hokkaido University","host_organization_lineage":["https://openalex.org/I205349734"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"article (author version)"}],"best_oa_location":{"id":"pmh:oai:irdb.nii.ac.jp:01364:0007164125","is_oa":true,"landing_page_url":"https://hdl.handle.net/2115/44622","pdf_url":"https://eprints.lib.hokudai.ac.jp/repo/huscap/all/44622/Supplementary_file.pdf","source":{"id":"https://openalex.org/S7407056385","display_name":"Institutional Repositories DataBase (IRDB)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I184597095","host_organization_name":"National Institute of Informatics","host_organization_lineage":["https://openalex.org/I184597095"],"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":"journal article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2166225722.pdf","grobid_xml":"https://content.openalex.org/works/W2166225722.grobid-xml"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W214577476","https://openalex.org/W255996521","https://openalex.org/W296047291","https://openalex.org/W1517566065","https://openalex.org/W1983304433","https://openalex.org/W2009919199","https://openalex.org/W2019951137","https://openalex.org/W2031194866","https://openalex.org/W2058463742","https://openalex.org/W2063831812","https://openalex.org/W2064041448","https://openalex.org/W2065367476","https://openalex.org/W2078290150","https://openalex.org/W2080653934","https://openalex.org/W2084891561","https://openalex.org/W2090774487","https://openalex.org/W2091563009","https://openalex.org/W2093689899","https://openalex.org/W2105902442","https://openalex.org/W2112109058","https://openalex.org/W2112794559","https://openalex.org/W2115332677","https://openalex.org/W2116044718","https://openalex.org/W2126609920","https://openalex.org/W2128402268","https://openalex.org/W2151345203","https://openalex.org/W2169087593","https://openalex.org/W2217901364","https://openalex.org/W2330066387","https://openalex.org/W2517092547","https://openalex.org/W4250577832","https://openalex.org/W6643578761","https://openalex.org/W6678558473","https://openalex.org/W6682484177"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2051487156","https://openalex.org/W2073681303","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2530322880"],"abstract_inverted_index":{"A":[0],"web":[1],"version":[2],"of":[3],"POCASA":[4],"is":[5],"freely":[6],"available":[7],"at":[8],"http://altair.sci.hokudai.ac.jp/g6/Research/POCASA_e.html.":[9]},"counts_by_year":[{"year":2026,"cited_by_count":10},{"year":2025,"cited_by_count":42},{"year":2024,"cited_by_count":33},{"year":2023,"cited_by_count":29},{"year":2022,"cited_by_count":48},{"year":2021,"cited_by_count":48},{"year":2020,"cited_by_count":26},{"year":2019,"cited_by_count":30},{"year":2018,"cited_by_count":25},{"year":2017,"cited_by_count":14},{"year":2016,"cited_by_count":25},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":22},{"year":2013,"cited_by_count":14},{"year":2012,"cited_by_count":10}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}