{"id":"https://openalex.org/W2609811411","doi":"https://doi.org/10.1093/nar/gkx332","title":"ModFOLD6: an accurate web server for the global and local quality estimation of 3D protein models","display_name":"ModFOLD6: an accurate web server for the global and local quality estimation of 3D protein models","publication_year":2017,"publication_date":"2017-04-21","ids":{"openalex":"https://openalex.org/W2609811411","doi":"https://doi.org/10.1093/nar/gkx332","mag":"2609811411","pmid":"https://pubmed.ncbi.nlm.nih.gov/28460136"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkx332","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkx332","pdf_url":"https://academic.oup.com/nar/article-pdf/45/W1/W416/18137337/gkx332.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/45/W1/W416/18137337/gkx332.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5088449071","display_name":"Ali H. A. Maghrabi","orcid":null},"institutions":[{"id":"https://openalex.org/I71052956","display_name":"University of Reading","ror":"https://ror.org/05v62cm79","country_code":"GB","type":"education","lineage":["https://openalex.org/I71052956"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Ali\u00a0H.\u00a0A. Maghrabi","raw_affiliation_strings":["School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK","institution_ids":["https://openalex.org/I71052956"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067569944","display_name":"Liam J. McGuffin","orcid":"https://orcid.org/0000-0003-4501-4767"},"institutions":[{"id":"https://openalex.org/I71052956","display_name":"University of Reading","ror":"https://ror.org/05v62cm79","country_code":"GB","type":"education","lineage":["https://openalex.org/I71052956"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Liam J. McGuffin","raw_affiliation_strings":["School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AS, UK","institution_ids":["https://openalex.org/I71052956"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5067569944","https://openalex.org/A5088449071"],"corresponding_institution_ids":["https://openalex.org/I71052956"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":6.3854,"has_fulltext":false,"cited_by_count":121,"citation_normalized_percentile":{"value":0.97569834,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"45","issue":"W1","first_page":"W416","last_page":"W421"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991000294685364,"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":0.9991000294685364,"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":0.9952999949455261,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/ranking","display_name":"Ranking (information retrieval)","score":0.7445037961006165},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.6761917471885681},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.639696478843689},{"id":"https://openalex.org/keywords/rank","display_name":"Rank (graph theory)","score":0.6064971089363098},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.5619117021560669},{"id":"https://openalex.org/keywords/server","display_name":"Server","score":0.5351406335830688},{"id":"https://openalex.org/keywords/selection","display_name":"Selection (genetic algorithm)","score":0.5295670628547668},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.4929678440093994},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.48136454820632935},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.4632687568664551},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3519933819770813},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.3312927484512329},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.2890627384185791},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2756829857826233},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.156795471906662},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.09416022896766663}],"concepts":[{"id":"https://openalex.org/C189430467","wikidata":"https://www.wikidata.org/wiki/Q7293293","display_name":"Ranking (information retrieval)","level":2,"score":0.7445037961006165},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6761917471885681},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.639696478843689},{"id":"https://openalex.org/C164226766","wikidata":"https://www.wikidata.org/wiki/Q7293202","display_name":"Rank (graph theory)","level":2,"score":0.6064971089363098},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.5619117021560669},{"id":"https://openalex.org/C93996380","wikidata":"https://www.wikidata.org/wiki/Q44127","display_name":"Server","level":2,"score":0.5351406335830688},{"id":"https://openalex.org/C81917197","wikidata":"https://www.wikidata.org/wiki/Q628760","display_name":"Selection (genetic algorithm)","level":2,"score":0.5295670628547668},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.4929678440093994},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.48136454820632935},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.4632687568664551},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3519933819770813},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.3312927484512329},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.2890627384185791},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2756829857826233},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.156795471906662},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.09416022896766663},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0}],"mesh":[{"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":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkx332","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkx332","pdf_url":"https://academic.oup.com/nar/article-pdf/45/W1/W416/18137337/gkx332.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:28460136","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28460136","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5570241","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5570241","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"Nucleic Acids Res","raw_type":"Text"},{"id":"pmh:oai:centaur.reading.ac.uk:70267","is_oa":false,"landing_page_url":"https://centaur.reading.ac.uk/view/creators/90000528.html>","pdf_url":null,"source":{"id":"https://openalex.org/S4306402273","display_name":"CentAUR (University of Reading)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71052956","host_organization_name":"University of Reading","host_organization_lineage":["https://openalex.org/I71052956"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/nar/gkx332","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkx332","pdf_url":"https://academic.oup.com/nar/article-pdf/45/W1/W416/18137337/gkx332.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2609811411.pdf"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W42344110","https://openalex.org/W1966672737","https://openalex.org/W1971627371","https://openalex.org/W1975459052","https://openalex.org/W1979077113","https://openalex.org/W1989228404","https://openalex.org/W1992192767","https://openalex.org/W2004377868","https://openalex.org/W2008708467","https://openalex.org/W2018820972","https://openalex.org/W2059935965","https://openalex.org/W2066349405","https://openalex.org/W2074986801","https://openalex.org/W2088933990","https://openalex.org/W2096004651","https://openalex.org/W2118387386","https://openalex.org/W2120230374","https://openalex.org/W2125677968","https://openalex.org/W2126711803","https://openalex.org/W2135681967","https://openalex.org/W2136799255","https://openalex.org/W2150831049","https://openalex.org/W2160236872","https://openalex.org/W2162902367","https://openalex.org/W2162980545","https://openalex.org/W2167661287","https://openalex.org/W2168321064","https://openalex.org/W2290412022","https://openalex.org/W2534288757"],"related_works":["https://openalex.org/W3160516639","https://openalex.org/W2626999804","https://openalex.org/W4250004941","https://openalex.org/W2736202444","https://openalex.org/W2049015391","https://openalex.org/W2137014442","https://openalex.org/W1533158771","https://openalex.org/W122082928","https://openalex.org/W2104288289","https://openalex.org/W2521397622"],"abstract_inverted_index":{"Methods":[0],"that":[1],"reliably":[2],"estimate":[3,74],"the":[4,8,20,33,79,91,94,127,138,152],"likely":[5],"similarity":[6],"between":[7],"predicted":[9,111],"and":[10,22,64,112,115,167],"native":[11],"structures":[12],"of":[13,24,36,42,93,110,151],"proteins":[14],"have":[15,159],"become":[16],"essential":[17],"for":[18,40,84,101,108,119,130],"driving":[19],"acceptance":[21],"adoption":[23],"three-dimensional":[25],"protein":[26],"models":[27],"by":[28,137],"life":[29],"scientists.":[30],"ModFOLD6":[31,55,117,123,142,173],"is":[32,99,106,144,175],"latest":[34],"version":[35],"our":[37,164],"leading":[38],"resource":[39],"Estimates":[41],"Model":[43],"Accuracy":[44],"(EMA),":[45],"which":[46,98,105],"uses":[47],"a":[48,70],"pioneering":[49],"hybrid":[50],"quasi-single":[51,66],"model":[52,62,67],"approach.":[53],"The":[54,122,141,172],"server":[56,80,143,166,174],"integrates":[57],"scores":[58,114],"from":[59],"three":[60,65,82],"pure-single":[61],"methods":[63,68,124],"using":[69],"neural":[71],"network":[72],"to":[73,133,163],"local":[75],"quality":[76],"scores.":[77],"Additionally,":[78],"provides":[81],"options":[83],"producing":[85],"global":[86,118],"score":[87],"estimates,":[88],"depending":[89],"on":[90],"requirements":[92],"user:":[95],"(i)":[96],"ModFOLD6_rank,":[97],"optimized":[100,107],"ranking/selection,":[102],"(ii)":[103],"ModFOLD6_cor,":[104],"correlations":[109],"observed":[113,161],"(iii)":[116],"balanced":[120],"performance.":[121],"rank":[125],"among":[126],"top":[128],"few":[129],"EMA,":[131],"according":[132],"independent":[134],"blind":[135],"testing":[136],"CASP12":[139],"assessors.":[140],"also":[145],"continuously":[146],"automatically":[147],"evaluated":[148],"as":[149],"part":[150],"CAMEO":[153],"project,":[154],"where":[155],"significant":[156],"performance":[157],"gains":[158],"been":[160],"compared":[162],"previous":[165],"other":[168],"publicly":[169],"available":[170,177],"servers.":[171],"freely":[176],"at:":[178],"http://www.reading.ac.uk/bioinf/ModFOLD/.":[179]},"counts_by_year":[{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":13},{"year":2021,"cited_by_count":24},{"year":2020,"cited_by_count":18},{"year":2019,"cited_by_count":23},{"year":2018,"cited_by_count":15},{"year":2017,"cited_by_count":7}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
