{"id":"https://openalex.org/W1974501179","doi":"https://doi.org/10.1109/tcbb.2014.2366126","title":"Parameterized BLOSUM Matrices for Protein Alignment","display_name":"Parameterized BLOSUM Matrices for Protein Alignment","publication_year":2014,"publication_date":"2014-10-31","ids":{"openalex":"https://openalex.org/W1974501179","doi":"https://doi.org/10.1109/tcbb.2014.2366126","mag":"1974501179","pmid":"https://pubmed.ncbi.nlm.nih.gov/26357279"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2014.2366126","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2366126","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","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/A5039153635","display_name":"Dandan Song","orcid":"https://orcid.org/0000-0002-7239-6900"},"institutions":[{"id":"https://openalex.org/I125839683","display_name":"Beijing Institute of Technology","ror":"https://ror.org/01skt4w74","country_code":"CN","type":"education","lineage":["https://openalex.org/I125839683","https://openalex.org/I890469752"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dandan Song","raw_affiliation_strings":["Beijing Engineering Research Center of High Volume language Information Processing & Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","[Beijing Engineering Research Center of High Volume Language Information Processing and Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Engineering Research Center of High Volume language Information Processing & Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","institution_ids":["https://openalex.org/I125839683"]},{"raw_affiliation_string":"[Beijing Engineering Research Center of High Volume Language Information Processing and Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China]","institution_ids":["https://openalex.org/I125839683"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100685931","display_name":"Jiaxing Chen","orcid":"https://orcid.org/0000-0001-5795-6722"},"institutions":[{"id":"https://openalex.org/I76835614","display_name":"University of Missouri","ror":"https://ror.org/02ymw8z06","country_code":"US","type":"education","lineage":["https://openalex.org/I76835614"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiaxing Chen","raw_affiliation_strings":["Department of Computer Science, University of Missouri, Columbia, MI"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Missouri, Columbia, MI","institution_ids":["https://openalex.org/I76835614"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100323048","display_name":"Guang Chen","orcid":"https://orcid.org/0000-0003-3906-9331"},"institutions":[{"id":"https://openalex.org/I125839683","display_name":"Beijing Institute of Technology","ror":"https://ror.org/01skt4w74","country_code":"CN","type":"education","lineage":["https://openalex.org/I125839683","https://openalex.org/I890469752"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guang Chen","raw_affiliation_strings":["Beijing Engineering Research Center of High Volume language Information Processing & Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","[Beijing Engineering Research Center of High Volume Language Information Processing and Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Engineering Research Center of High Volume language Information Processing & Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","institution_ids":["https://openalex.org/I125839683"]},{"raw_affiliation_string":"[Beijing Engineering Research Center of High Volume Language Information Processing and Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China]","institution_ids":["https://openalex.org/I125839683"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101689746","display_name":"Ning Li","orcid":"https://orcid.org/0000-0002-4002-0044"},"institutions":[{"id":"https://openalex.org/I125839683","display_name":"Beijing Institute of Technology","ror":"https://ror.org/01skt4w74","country_code":"CN","type":"education","lineage":["https://openalex.org/I125839683","https://openalex.org/I890469752"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ning Li","raw_affiliation_strings":["Beijing Engineering Research Center of High Volume language Information Processing & Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","[Beijing Engineering Research Center of High Volume Language Information Processing and Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Engineering Research Center of High Volume language Information Processing & Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China","institution_ids":["https://openalex.org/I125839683"]},{"raw_affiliation_string":"[Beijing Engineering Research Center of High Volume Language Information Processing and Cloud Computing Applications, School of Computer Science and Technology, Beijing Institute of Technology, Beijing, China]","institution_ids":["https://openalex.org/I125839683"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100741230","display_name":"Li Jin","orcid":"https://orcid.org/0000-0002-2927-0958"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Jin Li","raw_affiliation_strings":["Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong, China","City University of Hong Kong, Department of Computer Science, Kowloon, Hong Kong, China#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong, China","institution_ids":["https://openalex.org/I168719708"]},{"raw_affiliation_string":"City University of Hong Kong, Department of Computer Science, Kowloon, Hong Kong, China#TAB#","institution_ids":["https://openalex.org/I168719708"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101555013","display_name":"Jun Fan","orcid":"https://orcid.org/0000-0001-8451-3484"},"institutions":[{"id":"https://openalex.org/I135310074","display_name":"University of Wisconsin\u2013Madison","ror":"https://ror.org/01y2jtd41","country_code":"US","type":"education","lineage":["https://openalex.org/I135310074"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jun Fan","raw_affiliation_strings":["Department of Statistics, University of Wisconsin-Madison, Madison, WI","[Department of Statistics, University of Wisconsin Madison, Madison, WI]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, University of Wisconsin-Madison, Madison, WI","institution_ids":["https://openalex.org/I135310074"]},{"raw_affiliation_string":"[Department of Statistics, University of Wisconsin Madison, Madison, WI]","institution_ids":["https://openalex.org/I135310074"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076729236","display_name":"Dongbo Bu","orcid":"https://orcid.org/0000-0003-4119-4238"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongbo Bu","raw_affiliation_strings":["Key Lab of Intelligence Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","Key Lab of Intelligence Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Lab of Intelligence Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"raw_affiliation_string":"Key Lab of Intelligence Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China#TAB#","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083428910","display_name":"Shuai Cheng Li","orcid":"https://orcid.org/0000-0001-6246-6349"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Shuai Cheng Li","raw_affiliation_strings":["Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong, China","City University of Hong Kong, Department of Computer Science, Kowloon, Hong Kong, China#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong, China","institution_ids":["https://openalex.org/I168719708"]},{"raw_affiliation_string":"City University of Hong Kong, Department of Computer Science, Kowloon, Hong Kong, China#TAB#","institution_ids":["https://openalex.org/I168719708"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.6499,"has_fulltext":false,"cited_by_count":27,"citation_normalized_percentile":{"value":0.6610615,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"12","issue":"3","first_page":"686","last_page":"694"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9990000128746033,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9986000061035156,"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/eigenvalues-and-eigenvectors","display_name":"Eigenvalues and eigenvectors","score":0.6832927465438843},{"id":"https://openalex.org/keywords/parameterized-complexity","display_name":"Parameterized complexity","score":0.6647109985351562},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5533339381217957},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5062012076377869},{"id":"https://openalex.org/keywords/matrix","display_name":"Matrix (chemical analysis)","score":0.5054888725280762},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.4693653881549835},{"id":"https://openalex.org/keywords/variable","display_name":"Variable (mathematics)","score":0.43136242032051086},{"id":"https://openalex.org/keywords/eigendecomposition-of-a-matrix","display_name":"Eigendecomposition of a matrix","score":0.4117699861526489},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.30914366245269775},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.14774885773658752}],"concepts":[{"id":"https://openalex.org/C158693339","wikidata":"https://www.wikidata.org/wiki/Q190524","display_name":"Eigenvalues and eigenvectors","level":2,"score":0.6832927465438843},{"id":"https://openalex.org/C165464430","wikidata":"https://www.wikidata.org/wiki/Q1570441","display_name":"Parameterized complexity","level":2,"score":0.6647109985351562},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5533339381217957},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5062012076377869},{"id":"https://openalex.org/C106487976","wikidata":"https://www.wikidata.org/wiki/Q685816","display_name":"Matrix (chemical analysis)","level":2,"score":0.5054888725280762},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.4693653881549835},{"id":"https://openalex.org/C182365436","wikidata":"https://www.wikidata.org/wiki/Q50701","display_name":"Variable (mathematics)","level":2,"score":0.43136242032051086},{"id":"https://openalex.org/C169756996","wikidata":"https://www.wikidata.org/wiki/Q194919","display_name":"Eigendecomposition of a matrix","level":3,"score":0.4117699861526489},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.30914366245269775},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.14774885773658752},{"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},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2014.2366126","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2366126","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26357279","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26357279","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1173194731","display_name":"\u57fa\u4e8e\u77ed\u6587\u672c\u7684\u77e5\u8bc6\u5e93\u81ea\u52a8\u66f4\u65b0\u5173\u952e\u6280\u672f\u7814\u7a76","funder_award_id":"61472040","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2118282207","display_name":null,"funder_award_id":"YETP1198","funder_id":"https://openalex.org/F4320335442","funder_display_name":"Beijing Higher Education Young Elite Teacher Project"},{"id":"https://openalex.org/G3888631583","display_name":"\u86cb\u767d\u8d28\u7ed3\u6784\u6a21\u4f53\u8bc6\u522b\u53ca\u7ed3\u6784\u9884\u6d4b\u7b97\u6cd5\u7814\u7a76","funder_award_id":"61272318","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G567819098","display_name":null,"funder_award_id":"61003168","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7621884196","display_name":null,"funder_award_id":"9041901","funder_id":"https://openalex.org/F4320306709","funder_display_name":"Glaucoma Research Foundation"},{"id":"https://openalex.org/G7814778640","display_name":null,"funder_award_id":"31270834","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320306709","display_name":"Glaucoma Research Foundation","ror":"https://ror.org/05ez53b31"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335442","display_name":"Beijing Higher Education Young Elite Teacher Project","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W290667870","https://openalex.org/W1558365920","https://openalex.org/W1590240800","https://openalex.org/W1973578915","https://openalex.org/W2014553879","https://openalex.org/W2017519756","https://openalex.org/W2018885841","https://openalex.org/W2026881360","https://openalex.org/W2043046527","https://openalex.org/W2051916497","https://openalex.org/W2054229501","https://openalex.org/W2066593167","https://openalex.org/W2080901145","https://openalex.org/W2085277871","https://openalex.org/W2087064593","https://openalex.org/W2089499735","https://openalex.org/W2096234003","https://openalex.org/W2097818324","https://openalex.org/W2102017611","https://openalex.org/W2102502076","https://openalex.org/W2106882534","https://openalex.org/W2108107014","https://openalex.org/W2109086160","https://openalex.org/W2113398700","https://openalex.org/W2116377237","https://openalex.org/W2132926880","https://openalex.org/W2140872496","https://openalex.org/W2143210482","https://openalex.org/W2145358391","https://openalex.org/W2158460069","https://openalex.org/W2162495518","https://openalex.org/W2163860567","https://openalex.org/W2172102654","https://openalex.org/W6683018860"],"related_works":["https://openalex.org/W2051058708","https://openalex.org/W154868527","https://openalex.org/W1494268238","https://openalex.org/W1516574938","https://openalex.org/W1983207144","https://openalex.org/W2490706771","https://openalex.org/W1976468483","https://openalex.org/W2480116122","https://openalex.org/W2563912921","https://openalex.org/W2470850800"],"abstract_inverted_index":{"Protein":[0],"alignment":[1,118],"is":[2,123],"a":[3],"basic":[4],"step":[5],"for":[6,22,32,47,95],"many":[7],"molecular":[8],"biology":[9],"researches.":[10],"The":[11],"BLOSUM":[12],"matrices,":[13],"especially":[14],"BLOSUM62,":[15],"are":[16,137],"the":[17,30,41,55,63,74,77,106,128,157],"de":[18],"facto":[19],"standard":[20],"matrices":[21,31,78],"protein":[23,151],"alignments.":[24],"However,":[25],"after":[26,52],"widely":[27],"utilization":[28],"of":[29,44,76,108,143,159],"15":[33],"years,":[34],"programming":[35],"errors":[36],"were":[37],"surprisingly":[38],"found":[39],"in":[40],"initial":[42],"version":[43],"source":[45],"codes":[46],"their":[48],"generation.":[49],"And":[50],"amazingly,":[51],"bug":[53],"correction,":[54],"\"intended\"":[56],"BLOSUM62":[57],"matrix":[58,93,112,120],"performs":[59],"consistently":[60],"worse":[61],"than":[62],"\"miscalculated\"":[64],"one.":[65],"In":[66],"this":[67],"paper,":[68],"we":[69,90],"find":[70,84,127],"linear":[71],"relationships":[72],"among":[73],"eigenvalues":[75],"and":[79,119,131,146],"propose":[80],"an":[81,116],"algorithm":[82],"to":[83,125],"optimal":[85],"unified":[86],"eigenvectors.":[87],"With":[88],"them,":[89],"can":[91],"parameterize":[92],"BLOSUMx":[94],"any":[96],"given":[97],"variable":[98],"x":[99],"that":[100],"could":[101],"change":[102],"continuously.":[103],"We":[104],"compare":[105],"effectiveness":[107,158],"our":[109,160],"parameterized":[110],"isentropic":[111],"with":[113],"BLOSUM62.":[114],"Furthermore,":[115],"iterative":[117],"selection":[121],"process":[122],"proposed":[124,161],"adaptively":[126],"best":[129],"parameter":[130],"globally":[132],"align":[133],"two":[134],"sequences.":[135],"Experiments":[136],"conducted":[138],"on":[139,147],"aligning":[140],"13,667":[141],"families":[142],"Pfam":[144],"database":[145],"clustering":[148],"MHC":[149],"II":[150],"sequences,":[152],"whose":[153],"improved":[154],"accuracy":[155],"demonstrates":[156],"method.":[162]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":4},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
