{"id":"https://openalex.org/W2648949596","doi":"https://doi.org/10.1093/bioinformatics/btx417","title":"SCooP: an accurate and fast predictor of protein stability curves as a function of temperature","display_name":"SCooP: an accurate and fast predictor of protein stability curves as a function of temperature","publication_year":2017,"publication_date":"2017-06-23","ids":{"openalex":"https://openalex.org/W2648949596","doi":"https://doi.org/10.1093/bioinformatics/btx417","mag":"2648949596","pmid":"https://pubmed.ncbi.nlm.nih.gov/29036273"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx417","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx417","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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085366265","display_name":"Fabrizio Pucci","orcid":"https://orcid.org/0000-0003-2916-022X"},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":true,"raw_author_name":"Fabrizio Pucci","raw_affiliation_strings":["Department of BioModeling BioInformatics and BioProcesses, Universit\u00e9 Libre de Bruxelles and Interuniversity Institute of Bioinformatics in Brussels, Triumph Bld, Brussels, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of BioModeling BioInformatics and BioProcesses, Universit\u00e9 Libre de Bruxelles and Interuniversity Institute of Bioinformatics in Brussels, Triumph Bld, Brussels, Belgium","institution_ids":["https://openalex.org/I132053463"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037585501","display_name":"Jean Marc Kwasigroch","orcid":null},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":true,"raw_author_name":"Jean Marc Kwasigroch","raw_affiliation_strings":["Department of BioModeling BioInformatics and BioProcesses, Universit\u00e9 Libre de Bruxelles and Interuniversity Institute of Bioinformatics in Brussels, Triumph Bld, Brussels, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of BioModeling BioInformatics and BioProcesses, Universit\u00e9 Libre de Bruxelles and Interuniversity Institute of Bioinformatics in Brussels, Triumph Bld, Brussels, Belgium","institution_ids":["https://openalex.org/I132053463"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073330873","display_name":"Marianne Rooman","orcid":"https://orcid.org/0000-0002-3810-7802"},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":true,"raw_author_name":"Marianne Rooman","raw_affiliation_strings":["Department of BioModeling BioInformatics and BioProcesses, Universit\u00e9 Libre de Bruxelles and Interuniversity Institute of Bioinformatics in Brussels, Triumph Bld, Brussels, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of BioModeling BioInformatics and BioProcesses, Universit\u00e9 Libre de Bruxelles and Interuniversity Institute of Bioinformatics in Brussels, Triumph Bld, Brussels, Belgium","institution_ids":["https://openalex.org/I132053463"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5037585501","https://openalex.org/A5073330873","https://openalex.org/A5085366265"],"corresponding_institution_ids":["https://openalex.org/I132053463"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.4418,"has_fulltext":false,"cited_by_count":119,"citation_normalized_percentile":{"value":0.93679007,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"33","issue":"21","first_page":"3415","last_page":"3422"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9226999878883362,"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":0.9226999878883362,"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":0.024299999698996544,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.007600000128149986,"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/scoop","display_name":"SCOOP","score":0.8853419423103333},{"id":"https://openalex.org/keywords/stability","display_name":"Stability (learning theory)","score":0.6460608243942261},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5531983971595764},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44516652822494507},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1613822877407074},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.14119279384613037},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.0656605064868927}],"concepts":[{"id":"https://openalex.org/C2779427698","wikidata":"https://www.wikidata.org/wiki/Q17146793","display_name":"SCOOP","level":2,"score":0.8853419423103333},{"id":"https://openalex.org/C112972136","wikidata":"https://www.wikidata.org/wiki/Q7595718","display_name":"Stability (learning theory)","level":2,"score":0.6460608243942261},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5531983971595764},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44516652822494507},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1613822877407074},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.14119279384613037},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0656605064868927},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"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":"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":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055550","descriptor_name":"Protein Stability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055550","descriptor_name":"Protein Stability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055550","descriptor_name":"Protein Stability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btx417","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx417","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:29036273","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29036273","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:dipot.ulb.ac.be:2013/264289","is_oa":false,"landing_page_url":"http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/264289","pdf_url":null,"source":{"id":"https://openalex.org/S4306401063","display_name":"D\u00e9p\u00f4t institutionnel de l'Universit\u00e9 libre de Bruxelles (Universit\u00e9 Libre de Bruxelles)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I132053463","host_organization_name":"Universit\u00e9 Libre de Bruxelles","host_organization_lineage":["https://openalex.org/I132053463"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 33 (21","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7","score":0.8399999737739563}],"awards":[{"id":"https://openalex.org/G7918138676","display_name":null,"funder_award_id":"T.0100.16","funder_id":"https://openalex.org/F4320321390","funder_display_name":"Fonds De La Recherche Scientifique - FNRS"}],"funders":[{"id":"https://openalex.org/F4320321390","display_name":"Fonds De La Recherche Scientifique - FNRS","ror":"https://ror.org/03q83t159"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W176210329","https://openalex.org/W393742949","https://openalex.org/W834977926","https://openalex.org/W1494326194","https://openalex.org/W1551212125","https://openalex.org/W1844580348","https://openalex.org/W1865950956","https://openalex.org/W1949063151","https://openalex.org/W1966844407","https://openalex.org/W1981095009","https://openalex.org/W1995043867","https://openalex.org/W1998785304","https://openalex.org/W2008708467","https://openalex.org/W2014140912","https://openalex.org/W2026083488","https://openalex.org/W2030750487","https://openalex.org/W2031095877","https://openalex.org/W2032185892","https://openalex.org/W2046832917","https://openalex.org/W2048537773","https://openalex.org/W2061932208","https://openalex.org/W2064611220","https://openalex.org/W2067552612","https://openalex.org/W2074002527","https://openalex.org/W2076938281","https://openalex.org/W2103025737","https://openalex.org/W2120322316","https://openalex.org/W2123705273","https://openalex.org/W2125039552","https://openalex.org/W2130479394","https://openalex.org/W2135503340","https://openalex.org/W2153153865","https://openalex.org/W2154665416","https://openalex.org/W2201152614","https://openalex.org/W2298358682","https://openalex.org/W2354808644","https://openalex.org/W2414282720","https://openalex.org/W2519539312","https://openalex.org/W2565045120","https://openalex.org/W4247375522"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2209833712","https://openalex.org/W2398226711","https://openalex.org/W1864929253","https://openalex.org/W4252667786","https://openalex.org/W1581875667","https://openalex.org/W2259449100","https://openalex.org/W2360084173"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,166,252],"molecular":[2],"bases":[3],"of":[4,25,33,37,41,54,69,124,200,208,235,238,243],"protein":[5,108,211,239,247],"stability":[6,101,122,205],"remain":[7],"far":[8],"from":[9,59],"elucidated":[10],"even":[11],"though":[12],"substantial":[13],"progress":[14],"has":[15],"been":[16],"made":[17],"through":[18],"both":[19],"computational":[20],"and":[21,84,110,117,159,176,187],"experimental":[22,177],"investigations.":[23],"One":[24],"the":[26,31,38,42,63,67,90,107,111,119,138,143,147,151,160,198,204],"most":[27],"challenging":[28],"goals":[29],"is":[30,76,94,212,242,255],"development":[32],"accurate":[34,99],"prediction":[35,207],"tools":[36],"temperature":[39,149],"dependence":[40],"standard":[43,152,161],"folding":[44,132,144,153,162],"free":[45],"energy":[46],"\u0394G(T).":[47],"Such":[48],"predictors":[49],"have":[50],"an":[51,78],"enormous":[52],"series":[53],"potential":[55],"applications,":[56],"which":[57,93,190,241],"range":[58],"drug":[60],"design":[61],"in":[62],"biopharmaceutical":[64],"sector":[65],"to":[66,128,142,180,193],"optimization":[68],"enzyme":[70],"activity":[71],"for":[72,81,184,246],"biofuel":[73],"production.":[74],"There":[75],"thus":[77,223],"important":[79],"demand":[80],"novel,":[82],"reliable":[83],"fast":[85],"predictors.":[86],"RESULTS:":[87],"We":[88],"present":[89],"SCooP":[91,221,253],"algorithm,":[92],"a":[95,130,209,219,228],"significant":[96],"step":[97],"towards":[98],"temperature-dependent":[100],"prediction.":[102],"This":[103,231],"automated":[104],"tool":[105],"uses":[106],"structure":[109],"host":[112],"organism":[113],"as":[114],"sole":[115],"entries":[116],"predicts":[118,136],"full":[120],"T-dependent":[121],"curve":[123,206],"monomeric":[125],"proteins":[126],"assumed":[127],"follow":[129],"two-state":[131],"transition.":[133],"Equivalently,":[134],"it":[135,215],"all":[137],"thermodynamic":[139],"quantities":[140],"associated":[141],"transition,":[145],"namely":[146],"melting":[148],"Tm,":[150,158,188],"enthalpy":[154],"\u0394Hm":[155],"measured":[156],"at":[157,258,271],"heat":[163],"capacity":[164],"\u0394Cp.":[165],"cross-validated":[167],"performances":[168],"are":[169,269],"good,":[170],"with":[171],"correlation":[172],"coefficients":[173],"between":[174],"predicted":[175],"values":[178],"equal":[179],"[0.80,":[181],"0.83,":[182],"0.72]":[183],"\u0394Hm,":[185],"\u0394Cp":[186],"respectively,":[189],"increase":[191],"up":[192],"[0.88,":[194],"0.90,":[195],"0.78]":[196],"upon":[197],"removal":[199],"10%":[201],"outliers.":[202],"Moreover,":[203],"target":[210],"very":[213],"fast:":[214],"takes":[216],"less":[217],"than":[218],"minute.":[220],"can":[222],"potentially":[224],"be":[225],"applied":[226],"on":[227],"structurome":[229],"scale.":[230],"opens":[232],"new":[233],"perspectives":[234],"large-scale":[236],"analyses":[237],"stability,":[240],"considerable":[244],"interest":[245],"engineering.":[248],"AVAILABILITY":[249],"AND":[250],"IMPLEMENTATION:":[251],"webserver":[254],"freely":[256],"available":[257,270],"http://babylone.ulb.ac.be/SCooP.":[259],"CONTACT:":[260],"fapucci@ulb.ac.be,":[261],"jkwasigr@ulb.ac.be":[262],"or":[263],"mrooman@ulb.ac.be.":[264],"SUPPLEMENTARY":[265],"INFORMATION:":[266],"Supplementary":[267],"data":[268],"Bioinformatics":[272],"online.":[273]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":17},{"year":2022,"cited_by_count":29},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":19},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":1}],"updated_date":"2026-08-18T07:49:30.821534","created_date":"2025-10-10T00:00:00"}
