{"id":"https://openalex.org/W2141845923","doi":"https://doi.org/10.1186/1471-2105-15-22","title":"BioShell-Threading: versatile Monte Carlo package for protein 3D threading","display_name":"BioShell-Threading: versatile Monte Carlo package for protein 3D threading","publication_year":2014,"publication_date":"2014-01-20","ids":{"openalex":"https://openalex.org/W2141845923","doi":"https://doi.org/10.1186/1471-2105-15-22","mag":"2141845923","pmid":"https://pubmed.ncbi.nlm.nih.gov/24444459"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-15-22","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-22","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-22","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/10.1186/1471-2105-15-22","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023408252","display_name":"Pawe\u0142 Gniewek","orcid":"https://orcid.org/0000-0002-2102-9297"},"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"]},{"id":"https://openalex.org/I1314135232","display_name":"Nationwide Children's Hospital","ror":"https://ror.org/003rfsp33","country_code":"US","type":"funder","lineage":["https://openalex.org/I1314135232"]},{"id":"https://openalex.org/I1325736334","display_name":"Battelle","ror":"https://ror.org/01h5tnr73","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1325736334"]}],"countries":["PL","US"],"is_corresponding":true,"raw_author_name":"Pawel Gniewek","raw_affiliation_strings":["Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, 700 Childrens Drive, Columbus, OH 43205, USA","Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland","Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Warsaw, Poland","Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, Columbus, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, 700 Childrens Drive, Columbus, OH 43205, USA","institution_ids":["https://openalex.org/I1314135232"]},{"raw_affiliation_string":"Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, Columbus, USA","institution_ids":["https://openalex.org/I1314135232","https://openalex.org/I1325736334"]}]},{"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":["Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland","Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Warsaw, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086880109","display_name":"Andrzej Kloczkowski","orcid":"https://orcid.org/0000-0003-1002-5095"},"institutions":[{"id":"https://openalex.org/I1325736334","display_name":"Battelle","ror":"https://ror.org/01h5tnr73","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1325736334"]},{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]},{"id":"https://openalex.org/I1314135232","display_name":"Nationwide Children's Hospital","ror":"https://ror.org/003rfsp33","country_code":"US","type":"funder","lineage":["https://openalex.org/I1314135232"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrzej Kloczkowski","raw_affiliation_strings":["Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, 700 Childrens Drive, Columbus, OH 43205, USA","Department of Pediatrics, The Ohio State University, USA","Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, Columbus, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, 700 Childrens Drive, Columbus, OH 43205, USA","institution_ids":["https://openalex.org/I1314135232"]},{"raw_affiliation_string":"Department of Pediatrics, The Ohio State University, USA","institution_ids":["https://openalex.org/I52357470"]},{"raw_affiliation_string":"Battelle Center for Mathematical Medicine, The Research Institute at Nationwide Children\u2019s Hospital, Columbus, USA","institution_ids":["https://openalex.org/I1314135232","https://openalex.org/I1325736334"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013884470","display_name":"Dominik Gront","orcid":"https://orcid.org/0000-0002-2260-2083"},"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":"Dominik Gront","raw_affiliation_strings":["Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093 Warsaw, Poland. dgront@chem.uw.edu.pl","Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Warsaw, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093 Warsaw, Poland. dgront@chem.uw.edu.pl","institution_ids":[]},{"raw_affiliation_string":"Laboratory of Theory of Biopolymers, Faculty of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5023408252"],"corresponding_institution_ids":["https://openalex.org/I1314135232","https://openalex.org/I1325736334","https://openalex.org/I4654613"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.8537,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.73550666,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"15","issue":"1","first_page":"22","last_page":"22"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.44350001215934753,"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":0.44350001215934753,"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/T11162","display_name":"Enzyme Structure and Function","score":0.3864000141620636,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.02280000038444996,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/threading","display_name":"Threading (protein sequence)","score":0.96153724193573},{"id":"https://openalex.org/keywords/monte-carlo-method","display_name":"Monte Carlo method","score":0.6157367825508118},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5397099256515503},{"id":"https://openalex.org/keywords/multithreading","display_name":"Multithreading","score":0.45621317625045776},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.2092365026473999},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16897782683372498},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.09235268831253052},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08731940388679504}],"concepts":[{"id":"https://openalex.org/C200307862","wikidata":"https://www.wikidata.org/wiki/Q7797175","display_name":"Threading (protein sequence)","level":3,"score":0.96153724193573},{"id":"https://openalex.org/C19499675","wikidata":"https://www.wikidata.org/wiki/Q232207","display_name":"Monte Carlo method","level":2,"score":0.6157367825508118},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5397099256515503},{"id":"https://openalex.org/C201410400","wikidata":"https://www.wikidata.org/wiki/Q1064412","display_name":"Multithreading","level":3,"score":0.45621317625045776},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.2092365026473999},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16897782683372498},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.09235268831253052},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08731940388679504},{"id":"https://openalex.org/C138101251","wikidata":"https://www.wikidata.org/wiki/Q213092","display_name":"Thread (computing)","level":2,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"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":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","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":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","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":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/1471-2105-15-22","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-22","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-22","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:24444459","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24444459","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:europepmc.org:2917825","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3937128","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:10.1186/1471-2105-15-22","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-22","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-22","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":[],"awards":[{"id":"https://openalex.org/G168497515","display_name":null,"funder_award_id":"R01GM081680","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4961122233","display_name":null,"funder_award_id":"TEAM/2011-7/6","funder_id":"https://openalex.org/F4320321042","funder_display_name":"Fundacja na rzecz Nauki Polskiej"},{"id":"https://openalex.org/G6275994064","display_name":null,"funder_award_id":"R01GM073095","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8313730836","display_name":null,"funder_award_id":"R01GM081680-S1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8345628035","display_name":null,"funder_award_id":"R01GM072014","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8427492030","display_name":null,"funder_award_id":"TEAM/2011-7/6","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"}],"funders":[{"id":"https://openalex.org/F4320321042","display_name":"Fundacja na rzecz Nauki Polskiej","ror":"https://ror.org/048zd9m77"},{"id":"https://openalex.org/F4320323873","display_name":"Uniwersytet Warszawski","ror":"https://ror.org/039bjqg32"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320335322","display_name":"European Regional Development Fund","ror":"https://ror.org/00k4n6c32"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2141845923.pdf","grobid_xml":"https://content.openalex.org/works/W2141845923.grobid-xml"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W109881820","https://openalex.org/W1550166367","https://openalex.org/W1971126891","https://openalex.org/W1975017420","https://openalex.org/W1981264193","https://openalex.org/W1985040965","https://openalex.org/W1991538681","https://openalex.org/W2014072682","https://openalex.org/W2022058405","https://openalex.org/W2022368654","https://openalex.org/W2024060531","https://openalex.org/W2026898729","https://openalex.org/W2026918446","https://openalex.org/W2027736929","https://openalex.org/W2036738021","https://openalex.org/W2037139490","https://openalex.org/W2051210555","https://openalex.org/W2051969447","https://openalex.org/W2056760934","https://openalex.org/W2060100112","https://openalex.org/W2060107523","https://openalex.org/W2060145604","https://openalex.org/W2065283382","https://openalex.org/W2067852761","https://openalex.org/W2099075703","https://openalex.org/W2102245393","https://openalex.org/W2103047198","https://openalex.org/W2104533281","https://openalex.org/W2113541277","https://openalex.org/W2118836759","https://openalex.org/W2118851904","https://openalex.org/W2120251063","https://openalex.org/W2122520496","https://openalex.org/W2128577591","https://openalex.org/W2133715954","https://openalex.org/W2136567909","https://openalex.org/W2143210482","https://openalex.org/W2144357990","https://openalex.org/W2145268834","https://openalex.org/W2146379626","https://openalex.org/W2147039336","https://openalex.org/W2155201844","https://openalex.org/W2158714788","https://openalex.org/W2160672912","https://openalex.org/W2164671969","https://openalex.org/W2165271176","https://openalex.org/W2168508791","https://openalex.org/W2171546617","https://openalex.org/W2172175286","https://openalex.org/W2601913882","https://openalex.org/W2950687159"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2384903348","https://openalex.org/W4253890856","https://openalex.org/W2369027488","https://openalex.org/W2650626006","https://openalex.org/W196517846","https://openalex.org/W76998001","https://openalex.org/W2378658106","https://openalex.org/W4234222745","https://openalex.org/W4249302627"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,82,118,164],"comparative":[2],"modeling":[3],"approach":[4],"to":[5,24,51,78],"protein":[6,22,68,70],"structure":[7],"prediction":[8],"inherently":[9],"relies":[10],"on":[11,36],"a":[12,17,20,48,63,79,105,112,115],"template":[13,21,80,153],"structure.":[14],"Before":[15],"building":[16],"model":[18],"such":[19],"has":[23],"be":[25,93],"found":[26],"and":[27,54,75,128,156,169],"aligned":[28],"with":[29,167],"the":[30,42,99,126,137,148],"query":[31,76],"sequence.":[32],"Any":[33],"error":[34],"made":[35],"this":[37],"stage":[38],"may":[39],"dramatically":[40],"affects":[41],"quality":[43],"of":[44,87,107,130],"result.":[45],"There":[46],"is":[47,62,84,171],"need,":[49],"therefore,":[50],"develop":[52],"accurate":[53],"sensitive":[55],"alignment":[56,89,132],"protocols.":[57],"RESULTS:":[58],"BioShell":[59],"threading":[60,150],"software":[61,83],"versatile":[64],"tool":[65],"for":[66],"aligning":[67],"structures,":[69],"sequences":[71,77],"or":[72,103,114],"sequence":[73],"profiles":[74],"structures.":[81],"also":[85],"capable":[86],"sub-optimal":[88],"generation.":[90],"It":[91],"can":[92],"executed":[94],"as":[95,104],"an":[96],"application":[97,151],"from":[98,111],"UNIX":[100],"command":[101],"line,":[102],"set":[106],"Java":[108,116],"classes":[109],"called":[110],"script":[113],"application.":[117],"implemented":[119],"Monte":[120],"Carlo":[121],"search":[122],"engine":[123],"greatly":[124],"facilitates":[125],"development":[127],"benchmarking":[129],"new":[131,149],"scoring":[133],"schemes":[134],"even":[135],"when":[136],"functions":[138],"exhibit":[139],"non-deterministic":[140],"polynomial-time":[141],"complexity.":[142],"CONCLUSIONS:":[143],"Numerical":[144],"experiments":[145],"indicate":[146],"that":[147],"offers":[152],"detection":[154],"abilities":[155],"provides":[157],"much":[158],"better":[159],"alignments":[160],"than":[161],"other":[162],"methods.":[163],"package":[165],"along":[166],"documentation":[168],"examples":[170],"available":[172],"at:":[173],"http://bioshell.pl/threading3d.":[174]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
