{"id":"https://openalex.org/W2124815061","doi":"https://doi.org/10.1093/bioinformatics/bth021","title":"Phylogenomic inference of protein molecular function: advances and challenges","display_name":"Phylogenomic inference of protein molecular function: advances and challenges","publication_year":2004,"publication_date":"2004-01-20","ids":{"openalex":"https://openalex.org/W2124815061","doi":"https://doi.org/10.1093/bioinformatics/bth021","mag":"2124815061","pmid":"https://pubmed.ncbi.nlm.nih.gov/14734307"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bth021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/2/170/48905235/bioinformatics_20_2_170.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/20/2/170/48905235/bioinformatics_20_2_170.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5107849607","display_name":"Kimmen Sj\u00f6lander","orcid":null},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Kimmen Sj\u00f6lander","raw_affiliation_strings":["Berkeley Phylogenomics Group, Department of Bioengineering, University of California, 473 Evans Hall 1762, Berkeley, CA 94720-1762, USA. kimmen@uclink.berkeley.edu","Berkeley Phylogenomics Group, Department of Bioengineering, University of California, 473 Evans Hall #1762, Berkeley, CA 94720-1762, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Berkeley Phylogenomics Group, Department of Bioengineering, University of California, 473 Evans Hall 1762, Berkeley, CA 94720-1762, USA. kimmen@uclink.berkeley.edu","institution_ids":[]},{"raw_affiliation_string":"Berkeley Phylogenomics Group, Department of Bioengineering, University of California, 473 Evans Hall #1762, Berkeley, CA 94720-1762, USA#TAB#","institution_ids":["https://openalex.org/I95457486"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5107849607"],"corresponding_institution_ids":["https://openalex.org/I95457486"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":9.1645,"has_fulltext":false,"cited_by_count":208,"citation_normalized_percentile":{"value":0.98778681,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"20","issue":"2","first_page":"170","last_page":"179"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9922000169754028,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9736999869346619,"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/phylogenomics","display_name":"Phylogenomics","score":0.952487587928772},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.616750955581665},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5944774150848389},{"id":"https://openalex.org/keywords/protein-function-prediction","display_name":"Protein function prediction","score":0.5351746082305908},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5197758078575134},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.511347234249115},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.501288890838623},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.43968814611434937},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4349977374076843},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4338069558143616},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.42136651277542114},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.41110673546791077},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4032723903656006},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3641740679740906},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.346693754196167},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.33635658025741577},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3190598487854004},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.16235879063606262},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14390569925308228}],"concepts":[{"id":"https://openalex.org/C70343354","wikidata":"https://www.wikidata.org/wiki/Q3381973","display_name":"Phylogenomics","level":5,"score":0.952487587928772},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.616750955581665},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5944774150848389},{"id":"https://openalex.org/C207060522","wikidata":"https://www.wikidata.org/wiki/Q7251473","display_name":"Protein function prediction","level":4,"score":0.5351746082305908},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5197758078575134},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.511347234249115},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.501288890838623},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.43968814611434937},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4349977374076843},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4338069558143616},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.42136651277542114},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.41110673546791077},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4032723903656006},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3641740679740906},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.346693754196167},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.33635658025741577},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3190598487854004},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16235879063606262},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14390569925308228},{"id":"https://openalex.org/C44465124","wikidata":"https://www.wikidata.org/wiki/Q713623","display_name":"Clade","level":4,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","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/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","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":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013329","descriptor_name":"Structure-Activity Relationship","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bth021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/2/170/48905235/bioinformatics_20_2_170.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:14734307","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/14734307","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.412.943","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.412.943","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://cbio.ensmp.fr/~jvert/svn/bibli/local/Sjoelander2004Phylogenomic.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.847.3340","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.847.3340","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/content/20/2/170.full.pdf","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bth021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/2/170/48905235/bioinformatics_20_2_170.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2124815061.pdf","grobid_xml":"https://content.openalex.org/works/W2124815061.grobid-xml"},"referenced_works_count":76,"referenced_works":["https://openalex.org/W207833169","https://openalex.org/W1003773566","https://openalex.org/W1490937614","https://openalex.org/W1509280691","https://openalex.org/W1525759724","https://openalex.org/W1542243497","https://openalex.org/W1575826900","https://openalex.org/W1783219955","https://openalex.org/W1867732144","https://openalex.org/W1947762817","https://openalex.org/W1958476169","https://openalex.org/W1969057737","https://openalex.org/W1973491891","https://openalex.org/W1982505048","https://openalex.org/W1996874226","https://openalex.org/W2003144438","https://openalex.org/W2015236575","https://openalex.org/W2015278756","https://openalex.org/W2030966943","https://openalex.org/W2032838501","https://openalex.org/W2036792999","https://openalex.org/W2042718573","https://openalex.org/W2055043387","https://openalex.org/W2057885377","https://openalex.org/W2058336694","https://openalex.org/W2063479108","https://openalex.org/W2068117230","https://openalex.org/W2079213755","https://openalex.org/W2093259598","https://openalex.org/W2097706568","https://openalex.org/W2101220662","https://openalex.org/W2101418959","https://openalex.org/W2103017472","https://openalex.org/W2106620129","https://openalex.org/W2107251251","https://openalex.org/W2112162865","https://openalex.org/W2112492958","https://openalex.org/W2115230913","https://openalex.org/W2117077088","https://openalex.org/W2117436816","https://openalex.org/W2117477006","https://openalex.org/W2119885694","https://openalex.org/W2119900532","https://openalex.org/W2122665495","https://openalex.org/W2124105487","https://openalex.org/W2124410686","https://openalex.org/W2124908487","https://openalex.org/W2126394505","https://openalex.org/W2126602407","https://openalex.org/W2127230663","https://openalex.org/W2127774996","https://openalex.org/W2133549024","https://openalex.org/W2133790733","https://openalex.org/W2140244239","https://openalex.org/W2141411672","https://openalex.org/W2141885858","https://openalex.org/W2142967930","https://openalex.org/W2144362290","https://openalex.org/W2145358391","https://openalex.org/W2149057166","https://openalex.org/W2150471837","https://openalex.org/W2150868367","https://openalex.org/W2154284350","https://openalex.org/W2155479906","https://openalex.org/W2155972356","https://openalex.org/W2156668042","https://openalex.org/W2158714788","https://openalex.org/W2159266221","https://openalex.org/W2161444534","https://openalex.org/W2163860567","https://openalex.org/W2164652663","https://openalex.org/W2164864731","https://openalex.org/W2167455933","https://openalex.org/W2168909179","https://openalex.org/W2342591163","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2094822546","https://openalex.org/W4388708026","https://openalex.org/W2298284083","https://openalex.org/W2124815061","https://openalex.org/W1969080446","https://openalex.org/W3108941781","https://openalex.org/W2065048840","https://openalex.org/W2134206588","https://openalex.org/W2084200259","https://openalex.org/W2065993463"],"abstract_inverted_index":{"Software":[0],"tools":[1],"from":[2],"the":[3],"Berkeley":[4],"Phylogenomics":[5],"Group":[6],"are":[7],"available":[8],"at":[9],"http://phylogenomics.berkeley.edu":[10]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":9},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":9},{"year":2012,"cited_by_count":3}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
