{"id":"https://openalex.org/W2144606496","doi":"https://doi.org/10.1093/nar/gks498","title":"FastML: a web server for probabilistic reconstruction of ancestral sequences","display_name":"FastML: a web server for probabilistic reconstruction of ancestral sequences","publication_year":2012,"publication_date":"2012-05-31","ids":{"openalex":"https://openalex.org/W2144606496","doi":"https://doi.org/10.1093/nar/gks498","mag":"2144606496","pmid":"https://pubmed.ncbi.nlm.nih.gov/22661579"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gks498","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks498","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W580/4928528/gks498.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/40/W1/W580/4928528/gks498.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057094793","display_name":"Haim Ashkenazy","orcid":"https://orcid.org/0000-0002-5079-4684"},"institutions":[{"id":"https://openalex.org/I376102","display_name":"Agricultural Research Organization","ror":"https://ror.org/05hbrxp80","country_code":"IL","type":"government","lineage":["https://openalex.org/I376102"]},{"id":"https://openalex.org/I118564535","display_name":"University of Bern","ror":"https://ror.org/02k7v4d05","country_code":"CH","type":"education","lineage":["https://openalex.org/I118564535"]},{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["CH","IL"],"is_corresponding":true,"raw_author_name":"H. Ashkenazy","raw_affiliation_strings":["Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, Israel","Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, Israel","institution_ids":["https://openalex.org/I16391192"]},{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland","institution_ids":["https://openalex.org/I376102","https://openalex.org/I16391192","https://openalex.org/I118564535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110115275","display_name":"O.C.K.M. Penn","orcid":null},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]},{"id":"https://openalex.org/I376102","display_name":"Agricultural Research Organization","ror":"https://ror.org/05hbrxp80","country_code":"IL","type":"government","lineage":["https://openalex.org/I376102"]},{"id":"https://openalex.org/I118564535","display_name":"University of Bern","ror":"https://ror.org/02k7v4d05","country_code":"CH","type":"education","lineage":["https://openalex.org/I118564535"]}],"countries":["CH","IL"],"is_corresponding":false,"raw_author_name":"O. Penn","raw_affiliation_strings":["Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland","institution_ids":["https://openalex.org/I376102","https://openalex.org/I16391192","https://openalex.org/I118564535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041379517","display_name":"Adi Doron\u2010Faigenboim","orcid":null},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]},{"id":"https://openalex.org/I376102","display_name":"Agricultural Research Organization","ror":"https://ror.org/05hbrxp80","country_code":"IL","type":"government","lineage":["https://openalex.org/I376102"]},{"id":"https://openalex.org/I118564535","display_name":"University of Bern","ror":"https://ror.org/02k7v4d05","country_code":"CH","type":"education","lineage":["https://openalex.org/I118564535"]}],"countries":["CH","IL"],"is_corresponding":false,"raw_author_name":"A. Doron-Faigenboim","raw_affiliation_strings":["Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland","institution_ids":["https://openalex.org/I376102","https://openalex.org/I16391192","https://openalex.org/I118564535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083324690","display_name":"Ofir Cohen","orcid":"https://orcid.org/0000-0002-0043-6838"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]},{"id":"https://openalex.org/I376102","display_name":"Agricultural Research Organization","ror":"https://ror.org/05hbrxp80","country_code":"IL","type":"government","lineage":["https://openalex.org/I376102"]},{"id":"https://openalex.org/I118564535","display_name":"University of Bern","ror":"https://ror.org/02k7v4d05","country_code":"CH","type":"education","lineage":["https://openalex.org/I118564535"]}],"countries":["CH","IL"],"is_corresponding":false,"raw_author_name":"O. Cohen","raw_affiliation_strings":["Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland","institution_ids":["https://openalex.org/I376102","https://openalex.org/I16391192","https://openalex.org/I118564535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002622506","display_name":"Gina Cannarozzi","orcid":"https://orcid.org/0000-0002-0704-663X"},"institutions":[{"id":"https://openalex.org/I118564535","display_name":"University of Bern","ror":"https://ror.org/02k7v4d05","country_code":"CH","type":"education","lineage":["https://openalex.org/I118564535"]},{"id":"https://openalex.org/I376102","display_name":"Agricultural Research Organization","ror":"https://ror.org/05hbrxp80","country_code":"IL","type":"government","lineage":["https://openalex.org/I376102"]},{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["CH","IL"],"is_corresponding":false,"raw_author_name":"G. Cannarozzi","raw_affiliation_strings":["Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland","institution_ids":["https://openalex.org/I376102","https://openalex.org/I16391192","https://openalex.org/I118564535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014847335","display_name":"Oren Zomer","orcid":null},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]},{"id":"https://openalex.org/I118564535","display_name":"University of Bern","ror":"https://ror.org/02k7v4d05","country_code":"CH","type":"education","lineage":["https://openalex.org/I118564535"]},{"id":"https://openalex.org/I376102","display_name":"Agricultural Research Organization","ror":"https://ror.org/05hbrxp80","country_code":"IL","type":"government","lineage":["https://openalex.org/I376102"]}],"countries":["CH","IL"],"is_corresponding":false,"raw_author_name":"O. Zomer","raw_affiliation_strings":["Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland","institution_ids":["https://openalex.org/I376102","https://openalex.org/I16391192","https://openalex.org/I118564535"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5070736617","display_name":"Tal Pupko","orcid":"https://orcid.org/0000-0001-9463-2575"},"institutions":[{"id":"https://openalex.org/I376102","display_name":"Agricultural Research Organization","ror":"https://ror.org/05hbrxp80","country_code":"IL","type":"government","lineage":["https://openalex.org/I376102"]},{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]},{"id":"https://openalex.org/I118564535","display_name":"University of Bern","ror":"https://ror.org/02k7v4d05","country_code":"CH","type":"education","lineage":["https://openalex.org/I118564535"]}],"countries":["CH","IL"],"is_corresponding":false,"raw_author_name":"T. Pupko","raw_affiliation_strings":["Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, 69978 Tel Aviv, 2Institute of Plant Sciences, ARO, Volcani Center, PO Box 6, Bet Dagan 50250, Israel and 3Institute of Plant Sciences, University of Bern, CH-3013 Bern, Switzerland","institution_ids":["https://openalex.org/I376102","https://openalex.org/I16391192","https://openalex.org/I118564535"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5057094793"],"corresponding_institution_ids":["https://openalex.org/I118564535","https://openalex.org/I16391192","https://openalex.org/I376102"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":4.8368,"has_fulltext":true,"cited_by_count":371,"citation_normalized_percentile":{"value":0.96096301,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"40","issue":"W1","first_page":"W580","last_page":"W584"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9937999844551086,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9894999861717224,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/indel","display_name":"Indel","score":0.9005616903305054},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.8341232538223267},{"id":"https://openalex.org/keywords/indel-mutation","display_name":"INDEL Mutation","score":0.48556920886039734},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.47751253843307495},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.4193446636199951},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3925990164279938},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.34815436601638794},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3470911383628845},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.27735084295272827},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2243659794330597},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.13982519507408142},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13004019856452942}],"concepts":[{"id":"https://openalex.org/C119054055","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"Indel","level":5,"score":0.9005616903305054},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8341232538223267},{"id":"https://openalex.org/C2910714999","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"INDEL Mutation","level":5,"score":0.48556920886039734},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.47751253843307495},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.4193446636199951},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3925990164279938},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.34815436601638794},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3470911383628845},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.27735084295272827},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2243659794330597},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.13982519507408142},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13004019856452942},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.0},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","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":"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":"D012984","descriptor_name":"Software","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054299","descriptor_name":"env Gene Products, Human Immunodeficiency Virus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054299","descriptor_name":"env Gene Products, Human Immunodeficiency Virus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054299","descriptor_name":"env Gene Products, Human Immunodeficiency Virus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1093/nar/gks498","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks498","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W580/4928528/gks498.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:22661579","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22661579","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.797.9612","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.797.9612","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/e5/cd/gks498.PMC3394241.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.821.6565","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.821.6565","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://nar.oxfordjournals.org/content/early/2012/05/31/nar.gks498.full.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.823.6291","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.823.6291","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://nar.oxfordjournals.org/content/40/W1/W580.full.pdf","raw_type":"text"},{"id":"pmh:oai:boris.unibe.ch:16913","is_oa":true,"landing_page_url":"https://boris.unibe.ch/16913/","pdf_url":null,"source":{"id":"https://openalex.org/S4306401086","display_name":"Bern Open Repository and Information System (University of Bern)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I118564535","host_organization_name":"University of Bern","host_organization_lineage":["https://openalex.org/I118564535"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Ashkenazy, H.; Penn, O.; Doron-Faigenboim, A.; Cohen, O.; Cannarozzi, G.; Zomer, O.; Pupko, T. (2012). FastML: a web server for probabilistic reconstruction of ancestral sequences. Nucleic acids research, 40(W1), W580-W584. London: Oxford University Press 10.1093/nar/gks498 &lt;http://dx.doi.org/10.1093/nar/gks498&gt;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doc.rero.ch:295183","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400148","display_name":"reroDoc Digital Library","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""},{"id":"pmh:oai:europepmc.org:2409716","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3394241","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"},{"id":"pmh:oai:open-archive.highwire.org:nar:40/W1/W580","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/40/W1/W580","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/nar/gks498","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks498","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W580/4928528/gks498.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.4000000059604645}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2144606496.pdf","grobid_xml":"https://content.openalex.org/works/W2144606496.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W638482479","https://openalex.org/W1575292542","https://openalex.org/W1579352620","https://openalex.org/W1966327236","https://openalex.org/W1976445642","https://openalex.org/W1982607030","https://openalex.org/W1997497517","https://openalex.org/W2009596137","https://openalex.org/W2017519756","https://openalex.org/W2024341709","https://openalex.org/W2038978937","https://openalex.org/W2062018285","https://openalex.org/W2064394080","https://openalex.org/W2065973977","https://openalex.org/W2076844958","https://openalex.org/W2096702350","https://openalex.org/W2102502076","https://openalex.org/W2111762123","https://openalex.org/W2117569909","https://openalex.org/W2117752525","https://openalex.org/W2117884309","https://openalex.org/W2120772351","https://openalex.org/W2121958597","https://openalex.org/W2122156817","https://openalex.org/W2124790653","https://openalex.org/W2126424265","https://openalex.org/W2132576704","https://openalex.org/W2133585817","https://openalex.org/W2134155314","https://openalex.org/W2145780430","https://openalex.org/W2146058442","https://openalex.org/W2151835344","https://openalex.org/W2153163225","https://openalex.org/W2158266834","https://openalex.org/W2160500073","https://openalex.org/W2163627198","https://openalex.org/W2601913882"],"related_works":["https://openalex.org/W1971376828","https://openalex.org/W2046457574","https://openalex.org/W2135846417","https://openalex.org/W4206406917","https://openalex.org/W2080028493","https://openalex.org/W2167094946","https://openalex.org/W3103976079","https://openalex.org/W4387460329","https://openalex.org/W2147536515","https://openalex.org/W2996849075"],"abstract_inverted_index":{"Ancestral":[0],"sequence":[1,103],"reconstruction":[2,23],"is":[3,52,154,171,186,194],"essential":[4],"to":[5],"a":[6,18,64,107,117,128,148,159],"variety":[7],"of":[8,24,109,119,131,151,162,169,177],"evolutionary":[9,132],"studies.":[10],"Here,":[11],"we":[12],"present":[13],"the":[14,22,71,93,120,152,163,178],"FastML":[15,27,39,57,69,82,126,170,185],"web":[16],"server,":[17],"user-friendly":[19],"tool":[20],"for":[21,84,96,140,157,189],"ancestral":[25,60,74,87,110,123,165,175],"sequences.":[26,166],"implements":[28,127],"various":[29,182],"novel":[30],"features":[31],"that":[32],"differentiate":[33],"it":[34,89,136],"from":[35,112,181],"existing":[36],"tools:":[37],"(i)":[38],"uses":[40],"an":[41],"indel-coding":[42],"method,":[43],"in":[44,86],"which":[45,134],"each":[46,97,102],"gap,":[47],"possibly":[48],"spanning":[49],"multiples":[50],"sites,":[51],"coded":[53],"as":[54],"binary":[55],"data.":[56],"then":[58],"reconstructs":[59],"indel":[61,100],"states":[62],"assuming":[63],"continuous":[65],"time":[66],"Markov":[67],"process.":[68],"provides":[70,90],"most":[72],"likely":[73,122],"sequences,":[75],"integrating":[76],"both":[77],"indels":[78],"and":[79,99,116,138,143,146,193],"characters;":[80],"(ii)":[81],"accounts":[83],"uncertainty":[85],"states:":[88],"not":[91],"only":[92],"posterior":[94,114],"probabilities":[95],"character":[98],"at":[101,197],"position,":[104],"but":[105],"also":[106],"sample":[108],"sequences":[111,176],"this":[113],"distribution,":[115],"list":[118],"k-most":[121],"sequences;":[124,145],"(iii)":[125],"large":[129],"array":[130],"models,":[133],"makes":[135],"generic":[137],"applicable":[139],"nucleotide,":[141],"protein":[142,180],"codon":[144],"(iv)":[147],"graphical":[149,160],"representation":[150],"results":[153],"provided,":[155],"including,":[156],"example,":[158],"logo":[161],"inferred":[164],"The":[167],"utility":[168],"demonstrated":[172],"by":[173],"reconstructing":[174],"Env":[179],"HIV-1":[183],"subtypes.":[184],"freely":[187],"available":[188,195],"all":[190],"academic":[191],"users":[192],"online":[196],"http://fastml.tau.ac.il/.":[198]},"counts_by_year":[{"year":2026,"cited_by_count":9},{"year":2025,"cited_by_count":23},{"year":2024,"cited_by_count":39},{"year":2023,"cited_by_count":29},{"year":2022,"cited_by_count":26},{"year":2021,"cited_by_count":48},{"year":2020,"cited_by_count":43},{"year":2019,"cited_by_count":27},{"year":2018,"cited_by_count":36},{"year":2017,"cited_by_count":26},{"year":2016,"cited_by_count":29},{"year":2015,"cited_by_count":17},{"year":2014,"cited_by_count":14},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":1}],"updated_date":"2026-05-14T08:36:36.166977","created_date":"2025-10-10T00:00:00"}
