{"id":"https://openalex.org/W3005112985","doi":"https://doi.org/10.1162/artl_a_00313","title":"Interpreting the Tape of Life: Ancestry-Based Analyses Provide Insights and Intuition about Evolutionary Dynamics","display_name":"Interpreting the Tape of Life: Ancestry-Based Analyses Provide Insights and Intuition about Evolutionary Dynamics","publication_year":2020,"publication_date":"2020-02-06","ids":{"openalex":"https://openalex.org/W3005112985","doi":"https://doi.org/10.1162/artl_a_00313","mag":"3005112985","pmid":"https://pubmed.ncbi.nlm.nih.gov/32027535"},"language":"en","primary_location":{"id":"doi:10.1162/artl_a_00313","is_oa":false,"landing_page_url":"https://doi.org/10.1162/artl_a_00313","pdf_url":null,"source":{"id":"https://openalex.org/S2181302","display_name":"Artificial Life","issn_l":"1064-5462","issn":["1064-5462","1530-9185"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310315718","host_organization_name":"The MIT Press","host_organization_lineage":["https://openalex.org/P4310315718"],"host_organization_lineage_names":["The MIT Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Artificial Life","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/A5039490105","display_name":"Emily Dolson","orcid":"https://orcid.org/0000-0001-8616-4898"},"institutions":[{"id":"https://openalex.org/I87216513","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993","country_code":"US","type":"education","lineage":["https://openalex.org/I87216513"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Emily Dolson","raw_affiliation_strings":["Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering, Ecology, Evolutionary Biology, and Behavior Program"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering, Ecology, Evolutionary Biology, and Behavior Program","institution_ids":["https://openalex.org/I87216513"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008242968","display_name":"Alexander Lalejini","orcid":"https://orcid.org/0000-0003-0994-2718"},"institutions":[{"id":"https://openalex.org/I87216513","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993","country_code":"US","type":"education","lineage":["https://openalex.org/I87216513"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander Lalejini","raw_affiliation_strings":["Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering, Ecology, Evolutionary Biology, and Behavior Program"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering, Ecology, Evolutionary Biology, and Behavior Program","institution_ids":["https://openalex.org/I87216513"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022756823","display_name":"Steven Jens Jorgensen","orcid":"https://orcid.org/0000-0003-1305-8714"},"institutions":[{"id":"https://openalex.org/I87216513","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993","country_code":"US","type":"education","lineage":["https://openalex.org/I87216513"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven Jorgensen","raw_affiliation_strings":["Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering","institution_ids":["https://openalex.org/I87216513"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026353119","display_name":"Charles Ofria","orcid":"https://orcid.org/0000-0003-2924-1732"},"institutions":[{"id":"https://openalex.org/I87216513","display_name":"Michigan State University","ror":"https://ror.org/05hs6h993","country_code":"US","type":"education","lineage":["https://openalex.org/I87216513"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Charles Ofria","raw_affiliation_strings":["Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering, Ecology, Evolutionary Biology, and Behavior Program"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Michigan State University, BEACON Center for the Study of Evolution in Action, Department of Computer Science and Engineering, Ecology, Evolutionary Biology, and Behavior Program","institution_ids":["https://openalex.org/I87216513"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5039490105"],"corresponding_institution_ids":["https://openalex.org/I87216513"],"apc_list":null,"apc_paid":null,"fwci":1.5857,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.83294244,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"26","issue":"1","first_page":"58","last_page":"79"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9998999834060669,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9961000084877014,"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/T10012","display_name":"Genetic diversity and population structure","score":0.9939000010490417,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.7192572951316833},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.5777534246444702},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5541076064109802},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.5371070504188538},{"id":"https://openalex.org/keywords/intuition","display_name":"Intuition","score":0.45087146759033203},{"id":"https://openalex.org/keywords/evolutionary-dynamics","display_name":"Evolutionary dynamics","score":0.4407748281955719},{"id":"https://openalex.org/keywords/lineage","display_name":"Lineage (genetic)","score":0.4189954400062561},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.34474217891693115},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09553927183151245},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.09249424934387207}],"concepts":[{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.7192572951316833},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.5777534246444702},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5541076064109802},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.5371070504188538},{"id":"https://openalex.org/C132010649","wikidata":"https://www.wikidata.org/wiki/Q189222","display_name":"Intuition","level":2,"score":0.45087146759033203},{"id":"https://openalex.org/C171578705","wikidata":"https://www.wikidata.org/wiki/Q5418700","display_name":"Evolutionary dynamics","level":3,"score":0.4407748281955719},{"id":"https://openalex.org/C2776817793","wikidata":"https://www.wikidata.org/wiki/Q6553369","display_name":"Lineage (genetic)","level":3,"score":0.4189954400062561},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.34474217891693115},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09553927183151245},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.09249424934387207},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004777","descriptor_name":"Environment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004777","descriptor_name":"Environment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004777","descriptor_name":"Environment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"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":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","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":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019369","descriptor_name":"Life","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019369","descriptor_name":"Life","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019369","descriptor_name":"Life","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1162/artl_a_00313","is_oa":false,"landing_page_url":"https://doi.org/10.1162/artl_a_00313","pdf_url":null,"source":{"id":"https://openalex.org/S2181302","display_name":"Artificial Life","issn_l":"1064-5462","issn":["1064-5462","1530-9185"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310315718","host_organization_name":"The MIT Press","host_organization_lineage":["https://openalex.org/P4310315718"],"host_organization_lineage_names":["The MIT Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Artificial Life","raw_type":"journal-article"},{"id":"pmid:32027535","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32027535","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":"Artificial life","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":45,"referenced_works":["https://openalex.org/W758372786","https://openalex.org/W1587026990","https://openalex.org/W1601222803","https://openalex.org/W1961379460","https://openalex.org/W1969857637","https://openalex.org/W1982136937","https://openalex.org/W1994084909","https://openalex.org/W1997478924","https://openalex.org/W2005946215","https://openalex.org/W2014496483","https://openalex.org/W2054511209","https://openalex.org/W2057819145","https://openalex.org/W2058399238","https://openalex.org/W2059146372","https://openalex.org/W2085850813","https://openalex.org/W2088960431","https://openalex.org/W2092386318","https://openalex.org/W2112378508","https://openalex.org/W2114890821","https://openalex.org/W2124571229","https://openalex.org/W2140190241","https://openalex.org/W2147276070","https://openalex.org/W2166655850","https://openalex.org/W2171848078","https://openalex.org/W2242403758","https://openalex.org/W2497810168","https://openalex.org/W2498594651","https://openalex.org/W2526981653","https://openalex.org/W2527572108","https://openalex.org/W2565142667","https://openalex.org/W2582743722","https://openalex.org/W2756342002","https://openalex.org/W2831422597","https://openalex.org/W2885366791","https://openalex.org/W2895271995","https://openalex.org/W2907901897","https://openalex.org/W2916146753","https://openalex.org/W2950481816","https://openalex.org/W3104682361","https://openalex.org/W4234838584","https://openalex.org/W4242094059","https://openalex.org/W4243222321","https://openalex.org/W4254687493","https://openalex.org/W4285719527","https://openalex.org/W4399585190"],"related_works":["https://openalex.org/W2174809885","https://openalex.org/W2057191541","https://openalex.org/W2883025420","https://openalex.org/W1992658754","https://openalex.org/W2111939425","https://openalex.org/W2065083790","https://openalex.org/W2604174992","https://openalex.org/W2375383082","https://openalex.org/W1974895455","https://openalex.org/W3023641210"],"abstract_inverted_index":{"Fine-scale":[0],"evolutionary":[1,54,190],"dynamics":[2],"can":[3],"be":[4],"challenging":[5],"to":[6,48,100,188],"tease":[7],"out":[8],"when":[9],"focused":[10],"on":[11,33],"the":[12,42,51,77,94,131,137,173],"broad":[13,195],"brush":[14],"strokes":[15],"of":[16,27,44,53,64,79,93,133,139,150,158,168],"whole":[17],"populations":[18],"over":[19],"long":[20],"time":[21],"spans.":[22],"We":[23,60,129],"propose":[24],"a":[25,148,156,166],"suite":[26],"diagnostic":[28],"analysis":[29],"techniques":[30],"that":[31,110],"operate":[32],"lineages":[34,115],"and":[35,71,91,116,126,161,164,192],"phylogenies":[36],"in":[37,56,142,172],"digital":[38,57,175],"evolution":[39,58,176],"experiments,":[40],"with":[41],"aim":[43],"improving":[45],"our":[46,181],"capacity":[47],"quantitatively":[49],"explore":[50],"nuances":[52],"histories":[55],"experiments.":[59],"present":[61],"three":[62],"types":[63],"lineage":[65,67],"measurements:":[66],"length,":[68],"mutation":[69,159],"accumulation,":[70],"phenotypic":[72],"volatility.":[73],"Additionally,":[74],"we":[75,103],"suggest":[76],"adoption":[78],"four":[80],"phylogeny":[81],"measurements":[82],"from":[83],"biology:":[84],"phylogenetic":[85,87,89,124],"richness,":[86],"divergence,":[88],"regularity,":[90],"depth":[92],"most-recent":[95],"common":[96],"ancestor.":[97],"In":[98],"addition":[99],"quantitative":[101],"metrics,":[102],"also":[104],"discuss":[105],"several":[106],"existing":[107],"data":[108,140],"visualizations":[109],"are":[111],"useful":[112],"for":[113],"understanding":[114],"phylogenies:":[117],"state":[118],"sequence":[119],"visualizations,":[120],"fitness":[121],"landscape":[122],"overlays,":[123],"trees,":[125],"Muller":[127],"plots.":[128],"examine":[130],"behavior":[132],"these":[134,185],"metrics":[135,186],"(with":[136],"aid":[138],"visualizations)":[141],"two":[143],"well-studied":[144],"computational":[145],"contexts:":[146],"(1)":[147],"set":[149,167],"two-dimensional,":[151],"real-valued":[152],"optimization":[153],"problems":[154],"under":[155],"range":[157],"rates":[160],"selection":[162],"strengths,":[163],"(2)":[165],"qualitatively":[169],"different":[170],"environments":[171],"Avida":[174],"platform.":[177],"These":[178],"results":[179],"confirm":[180],"intuition":[182],"about":[183],"how":[184],"respond":[187],"various":[189],"conditions":[191],"indicate":[193],"their":[194],"value.":[196]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
