{"id":"https://openalex.org/W2988868846","doi":"https://doi.org/10.3390/e21111090","title":"Toward Inferring Potts Models for Phylogenetically Correlated Sequence Data","display_name":"Toward Inferring Potts Models for Phylogenetically Correlated Sequence Data","publication_year":2019,"publication_date":"2019-11-07","ids":{"openalex":"https://openalex.org/W2988868846","doi":"https://doi.org/10.3390/e21111090","mag":"2988868846"},"language":"en","primary_location":{"id":"doi:10.3390/e21111090","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e21111090","pdf_url":null,"source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.3390/e21111090","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078744980","display_name":"Edwin Rodr\u00edguez-Horta","orcid":"https://orcid.org/0000-0002-6690-629X"},"institutions":[{"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/I2656126","display_name":"University of Havana","ror":"https://ror.org/04204gr61","country_code":"CU","type":"education","lineage":["https://openalex.org/I2656126"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210097156","display_name":"Biologie Computationnelle, Quantitative et Synth\u00e9tique","ror":"https://ror.org/00pcqj134","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210097156"]},{"id":"https://openalex.org/I4210107326","display_name":"Institut de Biologie Paris-Seine","ror":"https://ror.org/01c2cjg59","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210107326"]}],"countries":["CU","FR"],"is_corresponding":false,"raw_author_name":"Edwin Rodriguez Horta","raw_affiliation_strings":["Group of Complex Systems and Statistical Physics, Department of Theoretical Physics, Physics Faculty, University of Havana, La Habana 10400, Cuba","Laboratoire de Biologie Computationnelle et Quantitative (LCQB), Institut de Biologie Paris-Seine, Sorbonne Universit\u00e9, Centre national de la recherche scientifique (CNRS), 75005 Paris, France"],"raw_orcid":"https://orcid.org/0000-0002-6690-629X","affiliations":[{"raw_affiliation_string":"Group of Complex Systems and Statistical Physics, Department of Theoretical Physics, Physics Faculty, University of Havana, La Habana 10400, Cuba","institution_ids":["https://openalex.org/I2656126"]},{"raw_affiliation_string":"Laboratoire de Biologie Computationnelle et Quantitative (LCQB), Institut de Biologie Paris-Seine, Sorbonne Universit\u00e9, Centre national de la recherche scientifique (CNRS), 75005 Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I4210107326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029469990","display_name":"Pierre Barrat-Charlaix","orcid":"https://orcid.org/0000-0002-3816-3724"},"institutions":[{"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/I1850255","display_name":"University of Basel","ror":"https://ror.org/02s6k3f65","country_code":"CH","type":"education","lineage":["https://openalex.org/I1850255"]},{"id":"https://openalex.org/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210097156","display_name":"Biologie Computationnelle, Quantitative et Synth\u00e9tique","ror":"https://ror.org/00pcqj134","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210097156"]},{"id":"https://openalex.org/I4210107326","display_name":"Institut de Biologie Paris-Seine","ror":"https://ror.org/01c2cjg59","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210107326"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"Pierre Barrat-Charlaix","raw_affiliation_strings":["Biozentrum, University of Basel, 4056 Basel, Switzerland","Laboratoire de Biologie Computationnelle et Quantitative (LCQB), Institut de Biologie Paris-Seine, Sorbonne Universit\u00e9, Centre national de la recherche scientifique (CNRS), 75005 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biozentrum, University of Basel, 4056 Basel, Switzerland","institution_ids":["https://openalex.org/I1850255"]},{"raw_affiliation_string":"Laboratoire de Biologie Computationnelle et Quantitative (LCQB), Institut de Biologie Paris-Seine, Sorbonne Universit\u00e9, Centre national de la recherche scientifique (CNRS), 75005 Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I4210107326"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035771024","display_name":"Martin Weigt","orcid":"https://orcid.org/0000-0002-0492-3684"},"institutions":[{"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/I39804081","display_name":"Sorbonne Universit\u00e9","ror":"https://ror.org/02en5vm52","country_code":"FR","type":"education","lineage":["https://openalex.org/I39804081"]},{"id":"https://openalex.org/I4210097156","display_name":"Biologie Computationnelle, Quantitative et Synth\u00e9tique","ror":"https://ror.org/00pcqj134","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210097156"]},{"id":"https://openalex.org/I4210107326","display_name":"Institut de Biologie Paris-Seine","ror":"https://ror.org/01c2cjg59","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I39804081","https://openalex.org/I4210096427","https://openalex.org/I4210107326"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Martin Weigt","raw_affiliation_strings":["Laboratoire de Biologie Computationnelle et Quantitative (LCQB), Institut de Biologie Paris-Seine, Sorbonne Universit\u00e9, Centre national de la recherche scientifique (CNRS), 75005 Paris, France"],"raw_orcid":"https://orcid.org/0000-0002-0492-3684","affiliations":[{"raw_affiliation_string":"Laboratoire de Biologie Computationnelle et Quantitative (LCQB), Institut de Biologie Paris-Seine, Sorbonne Universit\u00e9, Centre national de la recherche scientifique (CNRS), 75005 Paris, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I39804081","https://openalex.org/I4210097156","https://openalex.org/I4210107326"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1600,"currency":"CHF","value_usd":1621},"apc_paid":{"value":1307,"currency":"EUR","value_usd":1409},"fwci":1.4617,"has_fulltext":false,"cited_by_count":28,"citation_normalized_percentile":{"value":0.82497084,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"21","issue":"11","first_page":"1090","last_page":"1090"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","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"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.9943000078201294,"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/pairwise-comparison","display_name":"Pairwise comparison","score":0.6864045262336731},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.5813320875167847},{"id":"https://openalex.org/keywords/potts-model","display_name":"Potts model","score":0.5746217966079712},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5746064186096191},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.5229067206382751},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5029489398002625},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.44155097007751465},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.4298498034477234},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4191363751888275},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4161864221096039},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.3897876441478729},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3626210689544678},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.2728135585784912},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.26308882236480713},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.26209527254104614},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.24534079432487488},{"id":"https://openalex.org/keywords/ising-model","display_name":"Ising model","score":0.13226324319839478},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.11021429300308228},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08080592751502991}],"concepts":[{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.6864045262336731},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.5813320875167847},{"id":"https://openalex.org/C98925819","wikidata":"https://www.wikidata.org/wiki/Q7235385","display_name":"Potts model","level":3,"score":0.5746217966079712},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5746064186096191},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.5229067206382751},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5029489398002625},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.44155097007751465},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.4298498034477234},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4191363751888275},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4161864221096039},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.3897876441478729},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3626210689544678},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.2728135585784912},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.26308882236480713},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.26209527254104614},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.24534079432487488},{"id":"https://openalex.org/C51329190","wikidata":"https://www.wikidata.org/wiki/Q1076349","display_name":"Ising model","level":2,"score":0.13226324319839478},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.11021429300308228},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08080592751502991}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.3390/e21111090","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e21111090","pdf_url":null,"source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7514434","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7514434","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":"Entropy (Basel)","raw_type":"Text"},{"id":"pmh:oai:HAL:hal-02430765v1","is_oa":false,"landing_page_url":"https://hal.sorbonne-universite.fr/hal-02430765","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy, 2019, 21 (11), pp.1090. &#x27E8;10.3390/e21111090&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:8604744e7d9b4484a22849fe26da000a","is_oa":true,"landing_page_url":"https://doaj.org/article/8604744e7d9b4484a22849fe26da000a","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy, Vol 21, Iss 11, p 1090 (2019)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3390/e21111090","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e21111090","pdf_url":null,"source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4101407039","display_name":null,"funder_award_id":"734439 INFERNET","funder_id":"https://openalex.org/F4320338337","funder_display_name":"H2020 Marie Sk\u0142odowska-Curie Actions"}],"funders":[{"id":"https://openalex.org/F4320338337","display_name":"H2020 Marie Sk\u0142odowska-Curie Actions","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W1861406683","https://openalex.org/W1972948234","https://openalex.org/W1979762151","https://openalex.org/W1982583124","https://openalex.org/W2001438084","https://openalex.org/W2008545402","https://openalex.org/W2009570821","https://openalex.org/W2014706477","https://openalex.org/W2031611770","https://openalex.org/W2053671774","https://openalex.org/W2059145105","https://openalex.org/W2065921821","https://openalex.org/W2092572492","https://openalex.org/W2102424972","https://openalex.org/W2105329815","https://openalex.org/W2121444044","https://openalex.org/W2137566700","https://openalex.org/W2139118683","https://openalex.org/W2140697343","https://openalex.org/W2143238378","https://openalex.org/W2151831732","https://openalex.org/W2169478909","https://openalex.org/W2245592118","https://openalex.org/W2551582013","https://openalex.org/W2574496196","https://openalex.org/W2582710157","https://openalex.org/W2592570417","https://openalex.org/W2593641128","https://openalex.org/W2772248591","https://openalex.org/W2898402099","https://openalex.org/W2963640180","https://openalex.org/W2973498290","https://openalex.org/W3100163799","https://openalex.org/W3102341076","https://openalex.org/W3102678975","https://openalex.org/W3136918052","https://openalex.org/W3143219376","https://openalex.org/W4245668478","https://openalex.org/W6682627296","https://openalex.org/W6784891704"],"related_works":["https://openalex.org/W2194132979","https://openalex.org/W4244299128","https://openalex.org/W2018356890","https://openalex.org/W2079145549","https://openalex.org/W2012129103","https://openalex.org/W4389053053","https://openalex.org/W2903170547","https://openalex.org/W2804480386","https://openalex.org/W3186624150","https://openalex.org/W65850283"],"abstract_inverted_index":{"Global":[0],"coevolutionary":[1],"models":[2,41],"of":[3,27,57,64,94,97,129,144,169],"protein":[4,66,131,178],"families":[5],"have":[6],"become":[7],"increasingly":[8],"popular":[9],"due":[10],"to":[11,14,23,32,43,88,90,137],"their":[12,101],"capacity":[13],"predict":[15,24],"residue\u2013residue":[16],"contacts":[17,165],"from":[18,72],"sequence":[19],"information,":[20],"but":[21],"also":[22],"fitness":[25,167],"effects":[26],"amino":[28,58,145],"acid":[29],"substitutions":[30],"or":[31],"infer":[33],"protein\u2013protein":[34],"interactions.":[35],"The":[36],"central":[37],"idea":[38],"in":[39,61,135,140,163],"these":[40,158],"is":[42,86],"construct":[44],"a":[45,48,130,153],"probability":[46],"distribution,":[47],"Potts":[49,154],"model,":[50,99],"that":[51,125,152],"reproduces":[52],"single":[53],"and":[54,116,166],"pairwise":[55],"frequencies":[56,143,160],"acids":[59],"found":[60],"natural":[62],"sequences":[63,71],"the":[65,73,95,98,127,142],"family.":[67],"This":[68,84],"approach":[69],"treats":[70],"family":[74,132],"as":[75,110],"independent":[76],"samples,":[77],"completely":[78],"ignoring":[79],"phylogenetic":[80],"relations":[81],"between":[82],"them.":[83],"simplification":[85],"known":[87],"lead":[89],"potentially":[91],"biased":[92],"estimates":[93],"parameters":[96],"decreasing":[100],"biological":[102],"relevance.":[103],"Current":[104],"workarounds":[105],"for":[106],"this":[107],"problem,":[108],"such":[109],"reweighting":[111],"sequences,":[112],"are":[113,180],"poorly":[114],"understood":[115],"not":[117],"principled.":[118],"Here,":[119],"we":[120,150],"propose":[121],"an":[122],"inference":[123],"scheme":[124],"takes":[126],"phylogeny":[128],"into":[133],"account":[134],"order":[136],"correct":[138],"biases":[139],"estimating":[141],"acids.":[146],"Using":[147],"artificial":[148],"data,":[149],"show":[151],"model":[155],"inferred":[156],"using":[157],"corrected":[159],"performs":[161],"better":[162],"predicting":[164],"effect":[168],"mutations.":[170],"First,":[171],"only":[172],"partially":[173],"successful":[174],"tests":[175],"on":[176],"real":[177],"data":[179],"presented,":[181],"too.":[182]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":10},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":2}],"updated_date":"2026-08-28T12:50:07.497085","created_date":"2019-11-22T00:00:00"}
