{"id":"https://openalex.org/W2161746721","doi":"https://doi.org/10.1142/s021972001000494x","title":"RELATIVE VON NEUMANN ENTROPY FOR EVALUATING AMINO ACID CONSERVATION","display_name":"RELATIVE VON NEUMANN ENTROPY FOR EVALUATING AMINO ACID CONSERVATION","publication_year":2010,"publication_date":"2010-06-21","ids":{"openalex":"https://openalex.org/W2161746721","doi":"https://doi.org/10.1142/s021972001000494x","mag":"2161746721","pmid":"https://pubmed.ncbi.nlm.nih.gov/20981889"},"language":"en","primary_location":{"id":"doi:10.1142/s021972001000494x","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s021972001000494x","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/A5110275031","display_name":"Fredrik Johansson","orcid":"https://orcid.org/0009-0007-3909-7160"},"institutions":[{"id":"https://openalex.org/I135598925","display_name":"Kyushu University","ror":"https://ror.org/00p4k0j84","country_code":"JP","type":"education","lineage":["https://openalex.org/I135598925"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"FREDRIK JOHANSSON","raw_affiliation_strings":["Division of Bioinformatics, Medical Institute of Bioregulation, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka, 812-8582, Japan"],"affiliations":[{"raw_affiliation_string":"Division of Bioinformatics, Medical Institute of Bioregulation, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka, 812-8582, Japan","institution_ids":["https://openalex.org/I135598925"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5106184369","display_name":"Hiroyuki Toh","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"HIROYUKI TOH","raw_affiliation_strings":["CBRC, AIST Tokyo Waterfront Bio-IT Research Building, 2-42 Aomi, Koto-ku, Tokyo 135-0064, Japan"],"affiliations":[{"raw_affiliation_string":"CBRC, AIST Tokyo Waterfront Bio-IT Research Building, 2-42 Aomi, Koto-ku, Tokyo 135-0064, Japan","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5110275031"],"corresponding_institution_ids":["https://openalex.org/I135598925"],"apc_list":null,"apc_paid":null,"fwci":0.6777,"has_fulltext":false,"cited_by_count":25,"citation_normalized_percentile":{"value":0.70124047,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"08","issue":"05","first_page":"809","last_page":"823"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9983000159263611,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9983000159263611,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9940999746322632,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9937000274658203,"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/von-neumann-entropy","display_name":"Von Neumann entropy","score":0.9349274635314941},{"id":"https://openalex.org/keywords/joint-quantum-entropy","display_name":"Joint quantum entropy","score":0.7470157146453857},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.6687607169151306},{"id":"https://openalex.org/keywords/generalized-relative-entropy","display_name":"Generalized relative entropy","score":0.6348232626914978},{"id":"https://openalex.org/keywords/min-entropy","display_name":"Min entropy","score":0.6242362856864929},{"id":"https://openalex.org/keywords/r\u00e9nyi-entropy","display_name":"R\u00e9nyi entropy","score":0.6079239249229431},{"id":"https://openalex.org/keywords/quantum-relative-entropy","display_name":"Quantum relative entropy","score":0.6030094027519226},{"id":"https://openalex.org/keywords/entropy","display_name":"Entropy (arrow of time)","score":0.5657713413238525},{"id":"https://openalex.org/keywords/von-neumann-architecture","display_name":"Von Neumann architecture","score":0.5322316288948059},{"id":"https://openalex.org/keywords/conditional-quantum-entropy","display_name":"Conditional quantum entropy","score":0.5275311470031738},{"id":"https://openalex.org/keywords/quantum-mutual-information","display_name":"Quantum mutual information","score":0.5077494382858276},{"id":"https://openalex.org/keywords/maximum-entropy-thermodynamics","display_name":"Maximum entropy thermodynamics","score":0.46513551473617554},{"id":"https://openalex.org/keywords/entropy-in-thermodynamics-and-information-theory","display_name":"Entropy in thermodynamics and information theory","score":0.4474680721759796},{"id":"https://openalex.org/keywords/kullback\u2013leibler-divergence","display_name":"Kullback\u2013Leibler divergence","score":0.4302329123020172},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.37456393241882324},{"id":"https://openalex.org/keywords/principle-of-maximum-entropy","display_name":"Principle of maximum entropy","score":0.3105620741844177},{"id":"https://openalex.org/keywords/quantum","display_name":"Quantum","score":0.28493088483810425},{"id":"https://openalex.org/keywords/pure-mathematics","display_name":"Pure mathematics","score":0.21850094199180603},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.1786065697669983},{"id":"https://openalex.org/keywords/thermodynamics","display_name":"Thermodynamics","score":0.16352850198745728},{"id":"https://openalex.org/keywords/quantum-discord","display_name":"Quantum discord","score":0.13997182250022888},{"id":"https://openalex.org/keywords/quantum-mechanics","display_name":"Quantum mechanics","score":0.1377006471157074},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.1302759051322937},{"id":"https://openalex.org/keywords/quantum-entanglement","display_name":"Quantum entanglement","score":0.05860334634780884}],"concepts":[{"id":"https://openalex.org/C101973423","wikidata":"https://www.wikidata.org/wiki/Q6961323","display_name":"Von Neumann entropy","level":4,"score":0.9349274635314941},{"id":"https://openalex.org/C42047476","wikidata":"https://www.wikidata.org/wiki/Q6269544","display_name":"Joint quantum entropy","level":3,"score":0.7470157146453857},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.6687607169151306},{"id":"https://openalex.org/C5084201","wikidata":"https://www.wikidata.org/wiki/Q17090689","display_name":"Generalized relative entropy","level":5,"score":0.6348232626914978},{"id":"https://openalex.org/C196083917","wikidata":"https://www.wikidata.org/wiki/Q17103874","display_name":"Min entropy","level":5,"score":0.6242362856864929},{"id":"https://openalex.org/C142611142","wikidata":"https://www.wikidata.org/wiki/Q1433083","display_name":"R\u00e9nyi entropy","level":3,"score":0.6079239249229431},{"id":"https://openalex.org/C24495805","wikidata":"https://www.wikidata.org/wiki/Q7269091","display_name":"Quantum relative entropy","level":5,"score":0.6030094027519226},{"id":"https://openalex.org/C106301342","wikidata":"https://www.wikidata.org/wiki/Q4117933","display_name":"Entropy (arrow of time)","level":2,"score":0.5657713413238525},{"id":"https://openalex.org/C80469333","wikidata":"https://www.wikidata.org/wiki/Q189088","display_name":"Von Neumann architecture","level":2,"score":0.5322316288948059},{"id":"https://openalex.org/C16609844","wikidata":"https://www.wikidata.org/wiki/Q5159273","display_name":"Conditional quantum entropy","level":5,"score":0.5275311470031738},{"id":"https://openalex.org/C64775481","wikidata":"https://www.wikidata.org/wiki/Q3798613","display_name":"Quantum mutual information","level":5,"score":0.5077494382858276},{"id":"https://openalex.org/C49775889","wikidata":"https://www.wikidata.org/wiki/Q6795896","display_name":"Maximum entropy thermodynamics","level":4,"score":0.46513551473617554},{"id":"https://openalex.org/C148563202","wikidata":"https://www.wikidata.org/wiki/Q5380803","display_name":"Entropy in thermodynamics and information theory","level":5,"score":0.4474680721759796},{"id":"https://openalex.org/C171752962","wikidata":"https://www.wikidata.org/wiki/Q255166","display_name":"Kullback\u2013Leibler divergence","level":2,"score":0.4302329123020172},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.37456393241882324},{"id":"https://openalex.org/C9679016","wikidata":"https://www.wikidata.org/wiki/Q1417473","display_name":"Principle of maximum entropy","level":2,"score":0.3105620741844177},{"id":"https://openalex.org/C84114770","wikidata":"https://www.wikidata.org/wiki/Q46344","display_name":"Quantum","level":2,"score":0.28493088483810425},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.21850094199180603},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.1786065697669983},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.16352850198745728},{"id":"https://openalex.org/C139356082","wikidata":"https://www.wikidata.org/wiki/Q7269038","display_name":"Quantum discord","level":4,"score":0.13997182250022888},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.1377006471157074},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.1302759051322937},{"id":"https://openalex.org/C121040770","wikidata":"https://www.wikidata.org/wiki/Q215675","display_name":"Quantum entanglement","level":3,"score":0.05860334634780884}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D011789","descriptor_name":"Quantum Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011789","descriptor_name":"Quantum Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011789","descriptor_name":"Quantum Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1142/s021972001000494x","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s021972001000494x","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:20981889","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20981889","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":[{"score":0.7099999785423279,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320322349","display_name":"Ministry of Education, Science and Technology","ror":"https://ror.org/01p262204"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W1589618165","https://openalex.org/W1631356911","https://openalex.org/W1633894399","https://openalex.org/W1964640688","https://openalex.org/W1965555277","https://openalex.org/W1965582988","https://openalex.org/W1967293793","https://openalex.org/W1970999032","https://openalex.org/W1972691129","https://openalex.org/W1995875735","https://openalex.org/W2007737215","https://openalex.org/W2046407284","https://openalex.org/W2054453390","https://openalex.org/W2083468430","https://openalex.org/W2099254366","https://openalex.org/W2111909811","https://openalex.org/W2116099439","https://openalex.org/W2138289501","https://openalex.org/W2143210482","https://openalex.org/W2162574056","https://openalex.org/W2764347725"],"related_works":["https://openalex.org/W4388950697","https://openalex.org/W1648573185","https://openalex.org/W4283013026","https://openalex.org/W3101299541","https://openalex.org/W2083403685","https://openalex.org/W2140915619","https://openalex.org/W2161746721","https://openalex.org/W2134609380","https://openalex.org/W4300360364","https://openalex.org/W3098857864"],"abstract_inverted_index":{"The":[0,31],"Shannon":[1,24,40,111,115],"entropy":[2,25,34,62,76,99,116,121],"is":[3,35,56],"a":[4,69,101],"common":[5],"way":[6,102],"of":[7,10,38,72,103,131,139,145],"measuring":[8],"conservation":[9],"sites":[11,141],"in":[12,46,79,106],"multiple":[13],"sequence":[14,65,80],"alignments,":[15],"and":[16,100,117,135],"has":[17],"also":[18,93],"been":[19],"extended":[20],"with":[21],"the":[22,39,73,89,95,110,113,118,146],"relative":[23,59,96,114],"to":[26,48,85,108,143],"account":[27,49],"for":[28,50,64,77],"background":[29],"frequencies.":[30],"von":[32,60,74,97,119],"Neumann":[33,61,75,98,120],"another":[36],"extension":[37],"entropy,":[41,112],"adapted":[42],"from":[43],"quantum":[44],"mechanics":[45],"order":[47,107],"amino":[51],"acid":[52],"similarities.":[53],"However,":[54],"there":[55],"yet":[57],"no":[58],"defined":[63],"analysis.":[66],"We":[67,92,126],"introduce":[68,94],"new":[70],"definition":[71],"use":[78],"analysis,":[81],"which":[82],"we":[83],"found":[84,136],"perform":[86],"better":[87,137],"than":[88],"previous":[90],"definition.":[91],"parametrizing":[104],"this":[105,132],"obtain":[109],"at":[122],"special":[123],"parameter":[124,133],"values.":[125],"performed":[127],"an":[128],"exhaustive":[129],"search":[130],"space":[134],"predictions":[138],"catalytic":[140],"compared":[142],"any":[144],"previously":[147],"used":[148],"entropies.":[149]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":7},{"year":2016,"cited_by_count":1},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}