{"id":"https://openalex.org/W2069792162","doi":"https://doi.org/10.1371/journal.pcbi.1000077","title":"Measuring Global Credibility with Application to Local Sequence Alignment","display_name":"Measuring Global Credibility with Application to Local Sequence Alignment","publication_year":2008,"publication_date":"2008-05-15","ids":{"openalex":"https://openalex.org/W2069792162","doi":"https://doi.org/10.1371/journal.pcbi.1000077","mag":"2069792162","pmid":"https://pubmed.ncbi.nlm.nih.gov/18464927"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1000077","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000077","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000077&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000077&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5020443342","display_name":"Bobbie\u2010Jo Webb\u2010Robertson","orcid":"https://orcid.org/0000-0002-4744-2397"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Bobbie-Jo M. Webb-Robertson","raw_affiliation_strings":["Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America. bj@pnl.gov","Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America"],"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America. bj@pnl.gov","institution_ids":["https://openalex.org/I142606810"]},{"raw_affiliation_string":"Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055701440","display_name":"Lee Ann McCue","orcid":"https://orcid.org/0000-0003-4456-517X"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lee Ann McCue","raw_affiliation_strings":["Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America"],"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026511725","display_name":"Charles E. Lawrence","orcid":"https://orcid.org/0000-0003-4011-6692"},"institutions":[{"id":"https://openalex.org/I27804330","display_name":"Brown University","ror":"https://ror.org/05gq02987","country_code":"US","type":"education","lineage":["https://openalex.org/I27804330"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Charles E. Lawrence","raw_affiliation_strings":["Department of Applied Mathematics and the Center of Computational Molecular Biology, Brown University, Providence, Rhode Island, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Applied Mathematics and the Center of Computational Molecular Biology, Brown University, Providence, Rhode Island, United States of America","institution_ids":["https://openalex.org/I27804330"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5020443342"],"corresponding_institution_ids":["https://openalex.org/I142606810"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.5214,"has_fulltext":true,"cited_by_count":22,"citation_normalized_percentile":{"value":0.81755847,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"4","issue":"5","first_page":"e1000077","last_page":"e1000077"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9993000030517578,"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":0.9987999796867371,"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/bayesian-probability","display_name":"Bayesian probability","score":0.5391685366630554},{"id":"https://openalex.org/keywords/estimator","display_name":"Estimator","score":0.5251726508140564},{"id":"https://openalex.org/keywords/bayesian-inference","display_name":"Bayesian inference","score":0.5097805857658386},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.4928569793701172},{"id":"https://openalex.org/keywords/hamming-distance","display_name":"Hamming distance","score":0.4892127513885498},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44482263922691345},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4120372533798218},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.40546780824661255},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.38921546936035156},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3270165026187897},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.30800220370292664},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2496946156024933},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.23618125915527344}],"concepts":[{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.5391685366630554},{"id":"https://openalex.org/C185429906","wikidata":"https://www.wikidata.org/wiki/Q1130160","display_name":"Estimator","level":2,"score":0.5251726508140564},{"id":"https://openalex.org/C160234255","wikidata":"https://www.wikidata.org/wiki/Q812535","display_name":"Bayesian inference","level":3,"score":0.5097805857658386},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.4928569793701172},{"id":"https://openalex.org/C193319292","wikidata":"https://www.wikidata.org/wiki/Q272172","display_name":"Hamming distance","level":2,"score":0.4892127513885498},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44482263922691345},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4120372533798218},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.40546780824661255},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.38921546936035156},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3270165026187897},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.30800220370292664},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2496946156024933},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.23618125915527344}],"mesh":[{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001699","descriptor_name":"Biometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001699","descriptor_name":"Biometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001699","descriptor_name":"Biometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008967","descriptor_name":"Molecular Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008967","descriptor_name":"Molecular Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008967","descriptor_name":"Molecular Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011340","descriptor_name":"Problem Solving","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011340","descriptor_name":"Problem Solving","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011340","descriptor_name":"Problem Solving","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":8,"locations":[{"id":"doi:10.1371/journal.pcbi.1000077","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000077","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000077&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmid:18464927","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18464927","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:osti.gov:1627186","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1627186","pdf_url":"https://www.osti.gov/servlets/purl/1627186","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.275.7177","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.275.7177","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/6e/cf/PLoS_Comput_Biol_2008_May_16_4(5)_e1000077.tar.gz","raw_type":"text"},{"id":"pmh:oai:RePEc:plo:pcbi00:1000077","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1000077","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:6d7b2ace26614db293c7591135e521f6","is_oa":true,"landing_page_url":"https://doaj.org/article/6d7b2ace26614db293c7591135e521f6","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":"PLoS Computational Biology, Vol 4, Iss 5, p e1000077 (2008)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/150423","is_oa":true,"landing_page_url":"https://figshare.com/articles/Measuring_Global_Credibility_with_Application_to_Local_Sequence_Alignment/150423","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"},{"id":"pmh:oai:pubmedcentral.nih.gov:2367447","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2367447","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1000077","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000077","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000077&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1671782611","display_name":null,"funder_award_id":"DE-AC06-76RL0","funder_id":"https://openalex.org/F4320338354","funder_display_name":"Pacific Northwest National Laboratory"},{"id":"https://openalex.org/G1724155629","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320337547","funder_display_name":"Laboratory Directed Research and Development"},{"id":"https://openalex.org/G2506945562","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2643203774","display_name":null,"funder_award_id":"DE-AC06-76RL0183","funder_id":"https://openalex.org/F4320306250","funder_display_name":"Battelle"},{"id":"https://openalex.org/G4499092682","display_name":null,"funder_award_id":"DE-AC06-76RL01830","funder_id":"https://openalex.org/F4320306250","funder_display_name":"Battelle"},{"id":"https://openalex.org/G5219260752","display_name":null,"funder_award_id":"DE-FG","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G5321382714","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320338354","funder_display_name":"Pacific Northwest National Laboratory"},{"id":"https://openalex.org/G6828409481","display_name":"DEVELOPMENT OF BIOINFORMATICS AND EXPERIMENTAL TECHNOLOGIES FOR IDENTIFICATION OF PROKARYOTIC REGULATORY NETWORKS","funder_award_id":"FG02-04ER63942","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7186324567","display_name":null,"funder_award_id":"DE-FG02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7247582730","display_name":null,"funder_award_id":"DE-AC06-76RL01830","funder_id":"https://openalex.org/F4320338354","funder_display_name":"Pacific Northwest National Laboratory"},{"id":"https://openalex.org/G7288853145","display_name":null,"funder_award_id":"DE-AC06-76RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8414908677","display_name":null,"funder_award_id":"DE-AC0","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8684078510","display_name":null,"funder_award_id":"DE-FG02","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320306250","display_name":"Battelle","ror":"https://ror.org/01h5tnr73"},{"id":"https://openalex.org/F4320309070","display_name":"Brown University","ror":"https://ror.org/05gq02987"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337547","display_name":"Laboratory Directed Research and Development","ror":"https://ror.org/01e41cf67"},{"id":"https://openalex.org/F4320338354","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2069792162.pdf","grobid_xml":"https://content.openalex.org/works/W2069792162.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W88386512","https://openalex.org/W1494853941","https://openalex.org/W1502621331","https://openalex.org/W1558365920","https://openalex.org/W1963866954","https://openalex.org/W1970858544","https://openalex.org/W2002805476","https://openalex.org/W2009570821","https://openalex.org/W2015292449","https://openalex.org/W2027490384","https://openalex.org/W2038079502","https://openalex.org/W2046409778","https://openalex.org/W2049283139","https://openalex.org/W2055043387","https://openalex.org/W2055428026","https://openalex.org/W2059754738","https://openalex.org/W2061029680","https://openalex.org/W2062872358","https://openalex.org/W2069739265","https://openalex.org/W2071749306","https://openalex.org/W2072340282","https://openalex.org/W2077026347","https://openalex.org/W2087064593","https://openalex.org/W2087684629","https://openalex.org/W2089657469","https://openalex.org/W2094519647","https://openalex.org/W2101229087","https://openalex.org/W2102314894","https://openalex.org/W2112523911","https://openalex.org/W2113416388","https://openalex.org/W2119319890","https://openalex.org/W2134595458","https://openalex.org/W2142131700","https://openalex.org/W2143210482","https://openalex.org/W2158714788","https://openalex.org/W2160446587","https://openalex.org/W2601913882","https://openalex.org/W2610493105","https://openalex.org/W2611591252","https://openalex.org/W2797545377","https://openalex.org/W4372144402","https://openalex.org/W6629853974","https://openalex.org/W6668080254","https://openalex.org/W6750223540"],"related_works":["https://openalex.org/W2372267530","https://openalex.org/W2969189870","https://openalex.org/W2585791450","https://openalex.org/W3015855446","https://openalex.org/W4303857162","https://openalex.org/W2965643117","https://openalex.org/W4288266653","https://openalex.org/W2407375987","https://openalex.org/W2505726097","https://openalex.org/W2950975704"],"abstract_inverted_index":{"Computational":[0],"biology":[1],"is":[2,73,99,124,142],"replete":[3],"with":[4],"high-dimensional":[5],"(high-D)":[6],"discrete":[7,90],"prediction":[8,22,34],"and":[9,25,35,96,174,221,245],"inference":[10,36],"problems,":[11],"including":[12],"sequence":[13,140,219,224],"alignment,":[14],"RNA":[15],"structure":[16],"prediction,":[17,63],"phylogenetic":[18],"inference,":[19],"motif":[20],"finding,":[21],"of":[23,50,53,56,84,106,130,135,192,200,208,215,234,237,240],"pathways,":[24],"model":[26],"selection":[27],"problems":[28],"in":[29,37,149],"statistical":[30],"genetics.":[31],"Even":[32],"though":[33],"these":[38,92,158,241],"settings":[39],"are":[40,94,194],"uncertain,":[41],"little":[42],"attention":[43],"has":[44],"been":[45],"focused":[46],"on":[47],"the":[48,57,79,82,104,125,136,144,168,172,175,179,183,188,198,213,235],"development":[49],"global":[51],"measures":[52],"uncertainty.":[54,101],"Regardless":[55],"procedure":[58,66,148],"employed":[59],"to":[60,110,156,196,204,212],"produce":[61],"a":[62,65,68,74,115,131],"when":[64],"delivers":[67],"single":[69],"answer,":[70],"that":[71,170,181,231,246],"answer":[72],"point":[75],"estimate":[76],"selected":[77],"from":[78,187,226],"solution":[80],"ensemble,":[81],"set":[83],"all":[85],"possible":[86],"solutions.":[87],"For":[88],"high-D":[89],"space,":[91],"ensembles":[93],"immense,":[95],"thus":[97],"there":[98],"considerable":[100],"We":[102],"recommend":[103],"use":[105],"Bayesian":[107,201,209],"credibility":[108,122,202,210,232,252],"limits":[109,203,211,233,253],"describe":[111],"this":[112],"uncertainty,":[113],"where":[114],"(1-alpha)%,":[116],"0<":[117],"or":[118,120],"=alpha<":[119],"=1,":[121],"limit":[123],"minimum":[126],"Hamming":[127,185],"distance":[128,186],"radius":[129],"hyper-sphere":[132],"containing":[133],"(1-alpha)%":[134],"posterior":[137,189],"distribution.":[138],"Because":[139],"alignment":[141,169,180,205,214],"arguably":[143],"most":[145],"extensively":[146],"used":[147,195],"computational":[150],"biology,":[151],"we":[152],"employ":[153],"it":[154],"here":[155],"make":[157],"general":[159],"concepts":[160],"more":[161],"concrete.":[162],"The":[163],"maximum":[164,256],"similarity":[165,257],"estimator":[166,177],"(i.e.,":[167,178],"maximizes":[171],"likelihood)":[173],"centroid":[176,247],"minimizes":[182],"mean":[184],"weighted":[190],"ensemble":[191],"alignments)":[193],"demonstrate":[197],"application":[199],"estimators.":[206],"Application":[207],"20":[216],"human/rodent":[217],"orthologous":[218,223],"pairs":[220,225],"125":[222],"six":[227],"Shewanella":[228],"species":[229,242],"shows":[230],"alignments":[236,248],"promoter":[238],"sequences":[239],"vary":[243],"widely,":[244],"dependably":[249],"have":[250],"tighter":[251],"than":[254],"traditional":[255],"alignments.":[258]},"counts_by_year":[{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":3}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}