{"id":"https://openalex.org/W2005240848","doi":"https://doi.org/10.1186/1471-2105-11-75","title":"Mining protein loops using a structural alphabet and statistical exceptionality","display_name":"Mining protein loops using a structural alphabet and statistical exceptionality","publication_year":2010,"publication_date":"2010-02-04","ids":{"openalex":"https://openalex.org/W2005240848","doi":"https://doi.org/10.1186/1471-2105-11-75","mag":"2005240848","pmid":"https://pubmed.ncbi.nlm.nih.gov/20132552"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-11-75","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-75","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-75","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/10.1186/1471-2105-11-75","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5066913640","display_name":"Leslie Regad","orcid":"https://orcid.org/0000-0002-9292-5283"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Leslie Regad","raw_affiliation_strings":["MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, F-75205 Cedex 13, France. leslie.regad@univ-paris-diderot.fr","MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, France"],"affiliations":[{"raw_affiliation_string":"MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, F-75205 Cedex 13, France. leslie.regad@univ-paris-diderot.fr","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I169173203"]},{"raw_affiliation_string":"MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, France","institution_ids":["https://openalex.org/I169173203","https://openalex.org/I154526488","https://openalex.org/I204730241"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026973395","display_name":"Juliette Martin","orcid":"https://orcid.org/0000-0002-4787-0885"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210087293","display_name":"Institut de Biologie et de Chimie des Prot\u00e9ines","ror":"https://ror.org/0019x5d05","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I203339264","https://openalex.org/I4210087293","https://openalex.org/I4210096427"]},{"id":"https://openalex.org/I4210159481","display_name":"Math\u00e9matiques et Informatique Appliqu\u00e9es du G\u00e9nome \u00e0 l'Environnement","ror":"https://ror.org/05qdnns64","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210159481"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Juliette Martin","raw_affiliation_strings":["IFR 128, CNRS, UMR 5086, IBCP, Institut de Biologie et Chimie des Prot\u00e9ines, Universit\u00e9 Lyon 1, Lyon, F-69367, France","Unite Math\u00e9matiques Informatique et G\u00e9nome UR1077, INRA, Jouy-en-Josas, F-78350, France","Unite Math\u00e9matiques Informatique et G\u00e9nome UR1077, INRA, Jouy-en-Josas, France","IFR 128, CNRS, UMR 5086, IBCP, Institut de Biologie et Chimie des Prot\u00e9ines, Universit\u00e9 Lyon 1, Lyon, France"],"affiliations":[{"raw_affiliation_string":"IFR 128, CNRS, UMR 5086, IBCP, Institut de Biologie et Chimie des Prot\u00e9ines, Universit\u00e9 Lyon 1, Lyon, F-69367, France","institution_ids":["https://openalex.org/I100532134","https://openalex.org/I4210087293","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Unite Math\u00e9matiques Informatique et G\u00e9nome UR1077, INRA, Jouy-en-Josas, F-78350, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"Unite Math\u00e9matiques Informatique et G\u00e9nome UR1077, INRA, Jouy-en-Josas, France","institution_ids":["https://openalex.org/I4210159481"]},{"raw_affiliation_string":"IFR 128, CNRS, UMR 5086, IBCP, Institut de Biologie et Chimie des Prot\u00e9ines, Universit\u00e9 Lyon 1, Lyon, France","institution_ids":["https://openalex.org/I4210087293","https://openalex.org/I100532134","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109225913","display_name":"Gr\u00e9gory Nuel","orcid":null},"institutions":[{"id":"https://openalex.org/I110736937","display_name":"D\u00e9l\u00e9gation Paris 5","ror":"https://ror.org/02e0y6e06","country_code":"FR","type":"government","lineage":["https://openalex.org/I110736937","https://openalex.org/I154526488"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4387154995","display_name":"Math\u00e9matiques Appliqu\u00e9es \u00e0 Paris 5","ror":"https://ror.org/04yrrdj53","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4387154995"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Gregory Nuel","raw_affiliation_strings":["MAP5, UMR CNRS 8145, Universit\u00e9 Paris-Descartes, Paris, F-75006, France","MAP5, UMR CNRS 8145, Universit\u00e9 Paris Descartes, Paris, France"],"affiliations":[{"raw_affiliation_string":"MAP5, UMR CNRS 8145, Universit\u00e9 Paris-Descartes, Paris, F-75006, France","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I110736937","https://openalex.org/I4387154995"]},{"raw_affiliation_string":"MAP5, UMR CNRS 8145, Universit\u00e9 Paris Descartes, Paris, France","institution_ids":["https://openalex.org/I110736937","https://openalex.org/I204730241","https://openalex.org/I1294671590","https://openalex.org/I4387154995"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015097541","display_name":"Anne\u2010Claude Camproux","orcid":"https://orcid.org/0000-0001-8821-9952"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Anne-Claude Camproux","raw_affiliation_strings":["MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, F-75205 Cedex 13, France","MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, France"],"affiliations":[{"raw_affiliation_string":"MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, F-75205 Cedex 13, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I169173203"]},{"raw_affiliation_string":"MTi, Inserm UMR-S 973, Universit\u00e9 Paris Diderot- Paris 7, Paris, France","institution_ids":["https://openalex.org/I169173203","https://openalex.org/I154526488","https://openalex.org/I204730241"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5066913640"],"corresponding_institution_ids":["https://openalex.org/I154526488","https://openalex.org/I169173203","https://openalex.org/I204730241"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.7621,"has_fulltext":true,"cited_by_count":37,"citation_normalized_percentile":{"value":0.83668227,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"11","issue":"1","first_page":"75","last_page":"75"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9980999827384949,"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":0.9980999827384949,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9926000237464905,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9847000241279602,"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/loop-modeling","display_name":"Loop modeling","score":0.7864574193954468},{"id":"https://openalex.org/keywords/structural-motif","display_name":"Structural motif","score":0.6236685514450073},{"id":"https://openalex.org/keywords/structural-alignment","display_name":"Structural alignment","score":0.5786690711975098},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5712682008743286},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.533699631690979},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.5159772038459778},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank","score":0.5024008750915527},{"id":"https://openalex.org/keywords/protein-structure-database","display_name":"Protein structure database","score":0.48623624444007874},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.476762592792511},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.47195306420326233},{"id":"https://openalex.org/keywords/loop","display_name":"Loop (graph theory)","score":0.4492895305156708},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40375810861587524},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.34644240140914917},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.3052665591239929},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.25876182317733765},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24219441413879395},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2225070595741272},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2013305127620697},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.19751885533332825},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.18628132343292236},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.16494184732437134}],"concepts":[{"id":"https://openalex.org/C45475804","wikidata":"https://www.wikidata.org/wiki/Q6675846","display_name":"Loop modeling","level":4,"score":0.7864574193954468},{"id":"https://openalex.org/C132677234","wikidata":"https://www.wikidata.org/wiki/Q3273544","display_name":"Structural motif","level":2,"score":0.6236685514450073},{"id":"https://openalex.org/C4668613","wikidata":"https://www.wikidata.org/wiki/Q4116110","display_name":"Structural alignment","level":5,"score":0.5786690711975098},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5712682008743286},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.533699631690979},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.5159772038459778},{"id":"https://openalex.org/C119145174","wikidata":"https://www.wikidata.org/wiki/Q7251429","display_name":"Protein Data Bank","level":3,"score":0.5024008750915527},{"id":"https://openalex.org/C136475424","wikidata":"https://www.wikidata.org/wiki/Q7251500","display_name":"Protein structure database","level":4,"score":0.48623624444007874},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.476762592792511},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.47195306420326233},{"id":"https://openalex.org/C184670325","wikidata":"https://www.wikidata.org/wiki/Q512604","display_name":"Loop (graph theory)","level":2,"score":0.4492895305156708},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40375810861587524},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.34644240140914917},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.3052665591239929},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.25876182317733765},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24219441413879395},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2225070595741272},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2013305127620697},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.19751885533332825},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.18628132343292236},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.16494184732437134},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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":"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":"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":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"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":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-11-75","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-75","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-75","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:20132552","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20132552","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:HAL:inserm-00656194v1","is_oa":true,"landing_page_url":"https://inserm.hal.science/inserm-00656194","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, 2010, 11 (1), pp.75. ⟨10.1186/1471-2105-11-75⟩","raw_type":"Journal articles"},{"id":"pmh:oai:doaj.org/article:170bc18d486543699a81ba9a23ae5295","is_oa":true,"landing_page_url":"https://doaj.org/article/170bc18d486543699a81ba9a23ae5295","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 11, Iss 1, p 75 (2010)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2833150","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2833150","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-11-75","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-75","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-75","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":[],"funders":[{"id":"https://openalex.org/F4320323910","display_name":"Institut National de la Recherche Agronomique","ror":"https://ror.org/01x3gbx83"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2005240848.pdf","grobid_xml":"https://content.openalex.org/works/W2005240848.grobid-xml"},"referenced_works_count":83,"referenced_works":["https://openalex.org/W255996521","https://openalex.org/W1470225921","https://openalex.org/W1482207933","https://openalex.org/W1495099700","https://openalex.org/W1519235666","https://openalex.org/W1586022877","https://openalex.org/W1592824476","https://openalex.org/W1600771042","https://openalex.org/W1605897306","https://openalex.org/W1678387880","https://openalex.org/W1915528038","https://openalex.org/W1965555277","https://openalex.org/W1970654380","https://openalex.org/W1971099088","https://openalex.org/W1985744441","https://openalex.org/W2004234681","https://openalex.org/W2007048003","https://openalex.org/W2008708467","https://openalex.org/W2012702817","https://openalex.org/W2014270184","https://openalex.org/W2015976911","https://openalex.org/W2016483318","https://openalex.org/W2018461502","https://openalex.org/W2019572077","https://openalex.org/W2021197145","https://openalex.org/W2025822492","https://openalex.org/W2025932643","https://openalex.org/W2032643862","https://openalex.org/W2038147123","https://openalex.org/W2040273327","https://openalex.org/W2043078269","https://openalex.org/W2044284701","https://openalex.org/W2049821875","https://openalex.org/W2050085817","https://openalex.org/W2050322157","https://openalex.org/W2058693233","https://openalex.org/W2059120410","https://openalex.org/W2059203643","https://openalex.org/W2060418270","https://openalex.org/W2060459182","https://openalex.org/W2065509725","https://openalex.org/W2067816758","https://openalex.org/W2069319961","https://openalex.org/W2072138955","https://openalex.org/W2072287929","https://openalex.org/W2073032874","https://openalex.org/W2074655761","https://openalex.org/W2075820422","https://openalex.org/W2081516433","https://openalex.org/W2082535576","https://openalex.org/W2088082060","https://openalex.org/W2092036496","https://openalex.org/W2096425628","https://openalex.org/W2101386484","https://openalex.org/W2103612114","https://openalex.org/W2106976556","https://openalex.org/W2107966552","https://openalex.org/W2111329690","https://openalex.org/W2111696858","https://openalex.org/W2113403117","https://openalex.org/W2125800162","https://openalex.org/W2125838338","https://openalex.org/W2134312057","https://openalex.org/W2136517237","https://openalex.org/W2137760272","https://openalex.org/W2146231163","https://openalex.org/W2148757883","https://openalex.org/W2149943853","https://openalex.org/W2152655599","https://openalex.org/W2154588369","https://openalex.org/W2155063211","https://openalex.org/W2156367275","https://openalex.org/W2157485293","https://openalex.org/W2162219170","https://openalex.org/W2170535845","https://openalex.org/W2171172158","https://openalex.org/W2225480587","https://openalex.org/W2477521491","https://openalex.org/W2797579686","https://openalex.org/W2973456924","https://openalex.org/W3109965631","https://openalex.org/W4296472334","https://openalex.org/W4301258660"],"related_works":["https://openalex.org/W2607853144","https://openalex.org/W2099254366","https://openalex.org/W2121688928","https://openalex.org/W2969133412","https://openalex.org/W1997379747","https://openalex.org/W2084743099","https://openalex.org/W2125800162","https://openalex.org/W2005240848","https://openalex.org/W2106883599","https://openalex.org/W4232453105"],"abstract_inverted_index":{"We":[0,32],"developed":[1],"a":[2],"method":[3,16],"to":[4,58,69,77],"systematically":[5],"decompose":[6],"and":[7,24,29,43,74],"study":[8],"protein":[9,64,72],"loops":[10,73],"using":[11],"recurrent":[12],"structural":[13,21,27,35],"motifs.":[14],"This":[15,66],"is":[17,50],"based":[18],"on":[19,26],"the":[20,51,60,79],"alphabet":[22],"HMM-SA":[23],"not":[25],"alignment":[28],"geometrical":[30],"parameters.":[31],"extracted":[33],"meaningful":[34],"motifs":[36],"that":[37,54],"are":[38,86],"found":[39],"in":[40,63],"both":[41],"short":[42],"long":[44],"loops.":[45,65],"To":[46],"our":[47],"knowledge,":[48],"it":[49],"first":[52],"time":[53],"pattern":[55],"mining":[56],"helps":[57,68],"increase":[59],"signal-to-noise":[61],"ratio":[62],"finding":[67],"better":[70],"describe":[71],"might":[75],"permit":[76],"decrease":[78],"complexity":[80],"of":[81],"long-loop":[82],"analysis.":[83],"Detailed":[84],"results":[85],"available":[87],"at":[88],"http://www.mti.univ-paris-diderot.fr/publication/supplementary/2009/ACCLoop/.":[89]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-13T07:58:08.660418","created_date":"2025-10-10T00:00:00"}