{"id":"https://openalex.org/W2137259644","doi":"https://doi.org/10.1093/bioinformatics/btq294","title":"Exploring the potential of template-based modelling","display_name":"Exploring the potential of template-based modelling","publication_year":2010,"publication_date":"2010-06-04","ids":{"openalex":"https://openalex.org/W2137259644","doi":"https://doi.org/10.1093/bioinformatics/btq294","mag":"2137259644","pmid":"https://pubmed.ncbi.nlm.nih.gov/20525820"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq294","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq294","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/15/1849/16893998/btq294.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/26/15/1849/16893998/btq294.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054310701","display_name":"Braddon K. Lance","orcid":"https://orcid.org/0000-0003-2759-1157"},"institutions":[{"id":"https://openalex.org/I99043593","display_name":"Macquarie University","ror":"https://ror.org/01sf06y89","country_code":"AU","type":"education","lineage":["https://openalex.org/I99043593"]},{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["AU","GB"],"is_corresponding":true,"raw_author_name":"Braddon K. Lance","raw_affiliation_strings":["1 Department of Statistics, Macquarie University, North Ryde, Australia and 2Department of Statistics, University of Oxford, Oxford, UK"],"affiliations":[{"raw_affiliation_string":"1 Department of Statistics, Macquarie University, North Ryde, Australia and 2Department of Statistics, University of Oxford, Oxford, UK","institution_ids":["https://openalex.org/I99043593","https://openalex.org/I40120149"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015572211","display_name":"Charlotte M. Deane","orcid":"https://orcid.org/0000-0003-1388-2252"},"institutions":[{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]},{"id":"https://openalex.org/I99043593","display_name":"Macquarie University","ror":"https://ror.org/01sf06y89","country_code":"AU","type":"education","lineage":["https://openalex.org/I99043593"]}],"countries":["AU","GB"],"is_corresponding":false,"raw_author_name":"Charlotte M. Deane","raw_affiliation_strings":["1 Department of Statistics, Macquarie University, North Ryde, Australia and 2Department of Statistics, University of Oxford, Oxford, UK"],"affiliations":[{"raw_affiliation_string":"1 Department of Statistics, Macquarie University, North Ryde, Australia and 2Department of Statistics, University of Oxford, Oxford, UK","institution_ids":["https://openalex.org/I99043593","https://openalex.org/I40120149"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031765939","display_name":"Graham R. Wood","orcid":"https://orcid.org/0000-0002-9802-1269"},"institutions":[{"id":"https://openalex.org/I99043593","display_name":"Macquarie University","ror":"https://ror.org/01sf06y89","country_code":"AU","type":"education","lineage":["https://openalex.org/I99043593"]},{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["AU","GB"],"is_corresponding":false,"raw_author_name":"Graham R. Wood","raw_affiliation_strings":["1 Department of Statistics, Macquarie University, North Ryde, Australia and 2Department of Statistics, University of Oxford, Oxford, UK"],"affiliations":[{"raw_affiliation_string":"1 Department of Statistics, Macquarie University, North Ryde, Australia and 2Department of Statistics, University of Oxford, Oxford, UK","institution_ids":["https://openalex.org/I99043593","https://openalex.org/I40120149"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5054310701"],"corresponding_institution_ids":["https://openalex.org/I40120149","https://openalex.org/I99043593"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5422,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.6710851,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"26","issue":"15","first_page":"1849","last_page":"1856"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9991000294685364,"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/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9801999926567078,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.9005519151687622},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6145672798156738},{"id":"https://openalex.org/keywords/fragment","display_name":"Fragment (logic)","score":0.5606797337532043},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4611767530441284},{"id":"https://openalex.org/keywords/structural-alignment","display_name":"Structural alignment","score":0.4534074366092682},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.44285672903060913},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4079936444759369},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3871326744556427},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3600178360939026},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.30953794717788696},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16745609045028687},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.1314464807510376},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08776134252548218}],"concepts":[{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.9005519151687622},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6145672798156738},{"id":"https://openalex.org/C2776235265","wikidata":"https://www.wikidata.org/wiki/Q18392052","display_name":"Fragment (logic)","level":2,"score":0.5606797337532043},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4611767530441284},{"id":"https://openalex.org/C4668613","wikidata":"https://www.wikidata.org/wiki/Q4116110","display_name":"Structural alignment","level":5,"score":0.4534074366092682},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.44285672903060913},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4079936444759369},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3871326744556427},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3600178360939026},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.30953794717788696},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16745609045028687},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.1314464807510376},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08776134252548218},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","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}],"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":"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":"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":"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":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btq294","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq294","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/15/1849/16893998/btq294.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:20525820","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20525820","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:CiteSeerX.psu:10.1.1.919.4749","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.919.4749","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/content/early/2010/06/04/bioinformatics.btq294.full.pdf","raw_type":"text"},{"id":"pmh:oai:ora.ox.ac.uk:uuid:8c29270d-cbcc-4596-9474-967656c27f76","is_oa":false,"landing_page_url":"https://ora.ox.ac.uk/objects/uuid:8c29270d-cbcc-4596-9474-967656c27f76","pdf_url":null,"source":{"id":"https://openalex.org/S4306402636","display_name":"Oxford University Research Archive (ORA) (University of Oxford)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I40120149","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/I40120149"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PubMed (http://www.ncbi.nlm.nih.gov/pubmed/)","raw_type":"Journal article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btq294","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq294","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/15/1849/16893998/btq294.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":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2137259644.pdf","grobid_xml":"https://content.openalex.org/works/W2137259644.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1528905581","https://openalex.org/W1970995363","https://openalex.org/W1978072288","https://openalex.org/W1980374511","https://openalex.org/W1980955692","https://openalex.org/W1989777815","https://openalex.org/W1996051469","https://openalex.org/W1998586260","https://openalex.org/W2004178884","https://openalex.org/W2008708467","https://openalex.org/W2010458285","https://openalex.org/W2025967846","https://openalex.org/W2053425878","https://openalex.org/W2054153128","https://openalex.org/W2055395356","https://openalex.org/W2055779068","https://openalex.org/W2056788931","https://openalex.org/W2065283382","https://openalex.org/W2085277871","https://openalex.org/W2089035513","https://openalex.org/W2097744604","https://openalex.org/W2102245393","https://openalex.org/W2108627006","https://openalex.org/W2126195331","https://openalex.org/W2130280638","https://openalex.org/W2137015675","https://openalex.org/W2140514445","https://openalex.org/W2141022852","https://openalex.org/W2144103325","https://openalex.org/W2152873608","https://openalex.org/W2158307923","https://openalex.org/W2165969670","https://openalex.org/W2402250173","https://openalex.org/W4241935390","https://openalex.org/W4301861531","https://openalex.org/W6643129682"],"related_works":["https://openalex.org/W2029514038","https://openalex.org/W2088487249","https://openalex.org/W2111937814","https://openalex.org/W1985408726","https://openalex.org/W2051969447","https://openalex.org/W2061567716","https://openalex.org/W2084367350","https://openalex.org/W2130940308","https://openalex.org/W1981307089","https://openalex.org/W2056619794"],"abstract_inverted_index":{"The":[0],"improvement":[1,85,122],"in":[2,45,53],"accuracy":[3],"achievable":[4],"when":[5],"rigid":[6],"fragments":[7,109,132],"from":[8,20],"a":[9,68,141],"single":[10],"template":[11,31,69,108],"are":[12],"optimally":[13,136],"positioned":[14],"was":[15],"calculated":[16],"using":[17,76],"structure":[18,99],"pairs":[19],"the":[21,34,37,64,81,107,111,130],"HOMSTRAD":[22],"database,":[23],"as":[24,26],"well":[25],"CASP7":[27],"and":[28,51,100],"CASP8":[29],"target/best":[30],"pairs.":[32],"Over":[33],"union":[35],"of":[36,42,96,106,149],"structurally":[38],"conserved":[39,131],"regions,":[40],"improvements":[41],"0.7":[43],"A":[44,58],"root":[46],"mean":[47],"squared":[48],"deviation":[49],"(RMSD)":[50],"6%":[52],"GDT_HA":[54],"were":[55,133],"commonly":[56],"observed.":[57],"generalized":[59],"linear":[60],"model":[61],"revealed":[62],"that":[63,120],"extent":[65],"to":[66,87,134],"which":[67,147],"can":[70,73],"be":[71,74,124,135],"improved":[72],"predicted":[75],"four":[77],"variables.":[78],"Templates":[79],"with":[80],"greatest":[82],"scope":[83],"for":[84,113,143,146],"tend":[86],"have":[88],"relatively":[89],"more":[90],"fragments,":[91,93],"shorter":[92],"higher":[94],"percentage":[95],"helical":[97],"secondary":[98],"lower":[101],"sequence":[102],"identity.":[103],"Optimal":[104],"positioning":[105],"offers":[110],"potential":[112],"improving":[114],"loop":[115],"modelling.":[116],"These":[117],"results":[118],"demonstrate":[119],"substantial":[121],"could":[123],"made":[125],"on":[126],"many":[127],"templates":[128,145],"if":[129],"positioned.":[137],"They":[138],"also":[139],"provide":[140],"basis":[142],"identifying":[144],"modification":[148],"fragment":[150],"positions":[151],"may":[152],"yield":[153],"such":[154],"improvements.":[155]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}