{"id":"https://openalex.org/W2015249723","doi":"https://doi.org/10.1142/s0219720004000697","title":"CooPPS: A SYSTEM FOR THE COOPERATIVE PREDICTION OF PROTEIN STRUCTURES","display_name":"CooPPS: A SYSTEM FOR THE COOPERATIVE PREDICTION OF PROTEIN STRUCTURES","publication_year":2004,"publication_date":"2004-09-01","ids":{"openalex":"https://openalex.org/W2015249723","doi":"https://doi.org/10.1142/s0219720004000697","mag":"2015249723","pmid":"https://pubmed.ncbi.nlm.nih.gov/15359422"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720004000697","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720004000697","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","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/A5055479421","display_name":"Luigi Palopoli","orcid":"https://orcid.org/0000-0003-4915-5137"},"institutions":[{"id":"https://openalex.org/I45204951","display_name":"University of Calabria","ror":"https://ror.org/02rc97e94","country_code":"IT","type":"education","lineage":["https://openalex.org/I45204951"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"LUIGI PALOPOLI","raw_affiliation_strings":["DEIS \u2014 Universit\u00e0 della  Calabria, Via P. Bucci, 87036 Rende (CS), Italy"],"affiliations":[{"raw_affiliation_string":"DEIS \u2014 Universit\u00e0 della  Calabria, Via P. Bucci, 87036 Rende (CS), Italy","institution_ids":["https://openalex.org/I45204951"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084620092","display_name":"Giorgio Terracina","orcid":"https://orcid.org/0000-0002-3090-7223"},"institutions":[{"id":"https://openalex.org/I45204951","display_name":"University of Calabria","ror":"https://ror.org/02rc97e94","country_code":"IT","type":"education","lineage":["https://openalex.org/I45204951"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"GIORGIO TERRACINA","raw_affiliation_strings":["Dipartimento di Matematica, Universit\u00e0 della Calabria, Via P. Bucci, 87036 Rende (CS), Italy"],"affiliations":[{"raw_affiliation_string":"Dipartimento di Matematica, Universit\u00e0 della Calabria, Via P. Bucci, 87036 Rende (CS), Italy","institution_ids":["https://openalex.org/I45204951"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5055479421"],"corresponding_institution_ids":["https://openalex.org/I45204951"],"apc_list":null,"apc_paid":null,"fwci":0.2339,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.52128839,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"02","issue":"03","first_page":"471","last_page":"495"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.998199999332428,"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":0.998199999332428,"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":0.992900013923645,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9926999807357788,"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/computer-science","display_name":"Computer science","score":0.7659638524055481},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.6746138334274292},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6181190013885498},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5979545712471008},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.5767389535903931},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5544407963752747},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.48836299777030945},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.46213001012802124},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.45209652185440063},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.195837140083313},{"id":"https://openalex.org/keywords/systems-engineering","display_name":"Systems engineering","score":0.1261979341506958},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10883277654647827},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.10864731669425964}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7659638524055481},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.6746138334274292},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6181190013885498},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5979545712471008},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.5767389535903931},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5544407963752747},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.48836299777030945},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.46213001012802124},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.45209652185440063},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.195837140083313},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.1261979341506958},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10883277654647827},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10864731669425964},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","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/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","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":"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":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","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":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","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":2,"locations":[{"id":"doi:10.1142/s0219720004000697","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720004000697","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:15359422","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15359422","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":"Journal of bioinformatics and computational biology","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W1557027001","https://openalex.org/W1964647934","https://openalex.org/W1985818354","https://openalex.org/W1998966240","https://openalex.org/W2015642465","https://openalex.org/W2024249094","https://openalex.org/W2074732152","https://openalex.org/W2088083202","https://openalex.org/W2094051420","https://openalex.org/W2099946731","https://openalex.org/W2103471942","https://openalex.org/W2120107794","https://openalex.org/W2137259082","https://openalex.org/W2139279375","https://openalex.org/W2142529984","https://openalex.org/W2152326664","https://openalex.org/W2166728082","https://openalex.org/W4205995961","https://openalex.org/W4214550983"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4224009465","https://openalex.org/W4306674287","https://openalex.org/W4286629047","https://openalex.org/W4205958290","https://openalex.org/W4384212932","https://openalex.org/W2548721895","https://openalex.org/W2373456246","https://openalex.org/W4390590544","https://openalex.org/W2096195258"],"abstract_inverted_index":{"Predicting":[0],"the":[1,11,58,101,104,158,172,176,185,191,203,207,219,222],"three-dimensional":[2],"structure":[3,41],"of":[4,39,48,57,64,79,103,135,147,157,160,163,175,187,206,221],"proteins":[5],"is":[6,44,85,129],"a":[7,34,36,118,124,127,136,161,168,180,197],"difficult":[8],"task.":[9],"In":[10,81,121],"last":[12],"few":[13],"years":[14],"several":[15,107,215],"approaches":[16],"have":[17,109,225],"been":[18,212,226],"proposed":[19,130,208,223],"for":[20,75,141,179,217],"performing":[21],"this":[22,82,117,122],"task":[23],"taking":[24],"into":[25],"account":[26],"different":[27,90,142],"protein":[28,40],"chemical":[29],"and":[30,73,93,126,183,214],"physical":[31],"properties.":[32],"As":[33],"result,":[35],"growing":[37],"number":[38],"prediction":[42,91,143,148,169,181],"tools":[43,92,149],"becoming":[45],"available,":[46],"some":[47,55,62,152],"them":[49],"specialized":[50],"to":[51,87,99,110,115,195],"work":[52],"on":[53,61],"either":[54],"aspects":[56],"predictions":[59],"or":[60],"categories":[63],"proteins;":[65],"however,":[66],"they":[67],"are":[68],"still":[69],"not":[70],"sufficiently":[71],"accurate":[72],"reliable":[74],"predicting":[76],"all":[77],"kinds":[78],"proteins.":[80],"context,":[83],"it":[84],"useful":[86],"jointly":[88,165],"apply":[89],"combine":[94],"their":[95],"results":[96,189],"in":[97,113,190,193],"order":[98,114,194],"improve":[100],"quality":[102,153],"predictions.":[105],"However,":[106],"problems":[108],"be":[111],"solved":[112],"make":[116],"viable":[119],"possibility.":[120],"paper":[123],"framework":[125,209],"tool":[128],"which":[131],"allows:":[132],"(i)":[133],"definition":[134],"common":[137],"reference":[138],"applicative":[139],"domain":[140],"tools;":[144],"(ii)":[145],"characterization":[146,156],"through":[150],"evaluating":[151],"parameters;":[154],"(iii)":[155],"performances":[159],"team":[162,178,192],"predictors":[164],"applied":[166],"over":[167],"problem;":[170,182],"(iv)":[171],"singling":[173],"out":[174],"best":[177],"(v)":[184],"integration":[186],"predictor":[188],"obtain":[196],"unique":[198],"prediction.":[199],"A":[200],"system":[201],"implementing":[202],"various":[204],"steps":[205],"(CooPPS)":[210],"has":[211],"developed":[213],"experiments":[216],"testing":[218],"effectiveness":[220],"approach":[224],"carried":[227],"out.":[228]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
