{"id":"https://openalex.org/W4289139873","doi":"https://doi.org/10.25080/majora-212e5952-018","title":"Phylogeography: Analysis of genetic and climatic data of SARS-CoV-2","display_name":"Phylogeography: Analysis of genetic and climatic data of SARS-CoV-2","publication_year":2022,"publication_date":"2022-01-01","ids":{"openalex":"https://openalex.org/W4289139873","doi":"https://doi.org/10.25080/majora-212e5952-018"},"language":"en","primary_location":{"id":"doi:10.25080/majora-212e5952-018","is_oa":true,"landing_page_url":"https://doi.org/10.25080/majora-212e5952-018","pdf_url":"http://conference.scipy.org/proceedings/scipy2022/pdfs/nadia_tahiri.pdf","source":{"id":"https://openalex.org/S4220651651","display_name":"Proceedings of the Python in Science Conferences","issn_l":"2575-9752","issn":["2575-9752"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Python in Science Conference","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"http://conference.scipy.org/proceedings/scipy2022/pdfs/nadia_tahiri.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5063876203","display_name":"Aleksandr Koshkarov","orcid":"https://orcid.org/0000-0002-3630-2911"},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]},{"id":"https://openalex.org/I159129438","display_name":"Universit\u00e9 du Qu\u00e9bec \u00e0 Montr\u00e9al","ror":"https://ror.org/002rjbv21","country_code":"CA","type":"education","lineage":["https://openalex.org/I159129438","https://openalex.org/I49663120"]},{"id":"https://openalex.org/I178165815","display_name":"Astrakhan Tatischev State University","ror":"https://ror.org/04tf3kx07","country_code":"RU","type":"education","lineage":["https://openalex.org/I178165815"]}],"countries":["CA","RU"],"is_corresponding":false,"raw_author_name":"Aleksandr Koshkarov","raw_affiliation_strings":["Department of Computer Science, University of Sherbrooke, Sherbrooke, QC J1K2R1, Canada","Center of Artificial Intelligence, Astrakhan State University, Astrakhan, 414056, Russia","Contributed equally || Department of Computer Science, University of Quebec at Montreal, Mon-treal, QC, Canada"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Sherbrooke, Sherbrooke, QC J1K2R1, Canada","institution_ids":["https://openalex.org/I135117807"]},{"raw_affiliation_string":"Center of Artificial Intelligence, Astrakhan State University, Astrakhan, 414056, Russia","institution_ids":["https://openalex.org/I178165815"]},{"raw_affiliation_string":"Contributed equally || Department of Computer Science, University of Quebec at Montreal, Mon-treal, QC, Canada","institution_ids":["https://openalex.org/I159129438"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071057793","display_name":"Wanlin Li","orcid":"https://orcid.org/0000-0003-1975-2002"},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]},{"id":"https://openalex.org/I159129438","display_name":"Universit\u00e9 du Qu\u00e9bec \u00e0 Montr\u00e9al","ror":"https://ror.org/002rjbv21","country_code":"CA","type":"education","lineage":["https://openalex.org/I159129438","https://openalex.org/I49663120"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Wanlin Li","raw_affiliation_strings":["Contributed equally || Department of Computer Science, University of Quebec at Montreal, Mon-treal, QC, Canada","Department of Computer Science, University of Sherbrooke, Sherbrooke, QC J1K2R1, Canada"],"affiliations":[{"raw_affiliation_string":"Contributed equally || Department of Computer Science, University of Quebec at Montreal, Mon-treal, QC, Canada","institution_ids":["https://openalex.org/I159129438"]},{"raw_affiliation_string":"Department of Computer Science, University of Sherbrooke, Sherbrooke, QC J1K2R1, Canada","institution_ids":["https://openalex.org/I135117807"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075115212","display_name":"My-Linh Luu","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"My-Linh Luu","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5083583971","display_name":"Nadia Tahiri","orcid":"https://orcid.org/0000-0002-1818-208X"},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Nadia Tahiri","raw_affiliation_strings":["Department of Computer Science, University of Sherbrooke, Sherbrooke, QC J1K2R1, Canada"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Sherbrooke, Sherbrooke, QC J1K2R1, Canada","institution_ids":["https://openalex.org/I135117807"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5083583971"],"corresponding_institution_ids":["https://openalex.org/I135117807"],"apc_list":null,"apc_paid":null,"fwci":0.2604,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.51987518,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"159","last_page":"166"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9710999727249146,"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":0.9710999727249146,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9535999894142151,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9115999937057495,"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/python","display_name":"Python (programming language)","score":0.9027440547943115},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6111778020858765},{"id":"https://openalex.org/keywords/phylogeography","display_name":"Phylogeography","score":0.500760555267334},{"id":"https://openalex.org/keywords/coronavirus-disease-2019","display_name":"Coronavirus disease 2019 (COVID-19)","score":0.4156845808029175},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.26442939043045044},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2500632405281067},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.21872657537460327},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10695236921310425}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.9027440547943115},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6111778020858765},{"id":"https://openalex.org/C94043034","wikidata":"https://www.wikidata.org/wiki/Q377756","display_name":"Phylogeography","level":4,"score":0.500760555267334},{"id":"https://openalex.org/C3008058167","wikidata":"https://www.wikidata.org/wiki/Q84263196","display_name":"Coronavirus disease 2019 (COVID-19)","level":4,"score":0.4156845808029175},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.26442939043045044},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2500632405281067},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.21872657537460327},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10695236921310425},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C524204448","wikidata":"https://www.wikidata.org/wiki/Q788926","display_name":"Infectious disease (medical specialty)","level":3,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.25080/majora-212e5952-018","is_oa":true,"landing_page_url":"https://doi.org/10.25080/majora-212e5952-018","pdf_url":"http://conference.scipy.org/proceedings/scipy2022/pdfs/nadia_tahiri.pdf","source":{"id":"https://openalex.org/S4220651651","display_name":"Proceedings of the Python in Science Conferences","issn_l":"2575-9752","issn":["2575-9752"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Python in Science Conference","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.25080/majora-212e5952-018","is_oa":true,"landing_page_url":"https://doi.org/10.25080/majora-212e5952-018","pdf_url":"http://conference.scipy.org/proceedings/scipy2022/pdfs/nadia_tahiri.pdf","source":{"id":"https://openalex.org/S4220651651","display_name":"Proceedings of the Python in Science Conferences","issn_l":"2575-9752","issn":["2575-9752"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Python in Science Conference","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320311614","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39"},{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4289139873.pdf","grobid_xml":"https://content.openalex.org/works/W4289139873.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W1519266993","https://openalex.org/W2011128168","https://openalex.org/W2060425093","https://openalex.org/W2065681375","https://openalex.org/W2141052558","https://openalex.org/W2150553459","https://openalex.org/W2161854763","https://openalex.org/W3009741597","https://openalex.org/W3010096538","https://openalex.org/W3020775219","https://openalex.org/W3159771495","https://openalex.org/W3180301457","https://openalex.org/W3200130214","https://openalex.org/W4206328716","https://openalex.org/W4213136013","https://openalex.org/W4256620417","https://openalex.org/W4288400169","https://openalex.org/W6931893391"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2341492732","https://openalex.org/W3187193180","https://openalex.org/W106542691","https://openalex.org/W4287027380","https://openalex.org/W1699080303","https://openalex.org/W4297799326","https://openalex.org/W3116064965","https://openalex.org/W3193760048","https://openalex.org/W4285822516"],"abstract_inverted_index":{"Due":[0],"to":[1,18,25,36,175],"the":[2,5,13,20,73,76,89,98,105,124,177],"fact":[3],"that":[4,68,121],"SARS-CoV-2":[6,43],"pandemic":[7],"reaches":[8],"its":[9,29],"peak,":[10],"researchers":[11,70],"around":[12],"globe":[14],"are":[15],"combining":[16],"efforts":[17],"investigate":[19],"genetics":[21],"of":[22,40,75,104,150,164,166,179],"different":[23,180],"variants":[24],"better":[26,71],"deal":[27],"with":[28,45],"distribution.":[30],"This":[31],"paper":[32],"discusses":[33],"phylogeographic":[34,62],"approaches":[35],"examine":[37],"how":[38],"patterns":[39],"divergence":[41],"within":[42],"coincide":[44],"geographic":[46,115],"features,":[47],"such":[48],"as":[49],"climatic":[50],"features.":[51],"First,":[52],"we":[53,160],"propose":[54],"a":[55,82,93,109,118,132,136],"python-based":[56],"bioinformatic":[57],"pipeline":[58,152],"called":[59],"aPhylogeo":[60,99,140,169],"for":[61],"analysis":[63,90,165],"written":[64],"in":[65,78,92,128],"Python":[66],"3":[67],"help":[69],"understand":[72,176],"distribution":[74],"virus":[77],"specific":[79],"regions":[80],"via":[81],"configuration":[83],"file,":[84],"and":[85,131,146],"then":[86],"run":[87],"all":[88],"operations":[91],"single":[94],"run.":[95],"In":[96],"particular,":[97],"tool":[100,170],"determines":[101],"which":[102],"parts":[103],"genetic":[106,125],"sequence":[107,126],"undergo":[108],"high":[110],"mutation":[111],"rate":[112],"depending":[113],"on":[114,142,156,171],"conditions,":[116],"using":[117],"sliding":[119],"window":[120,133],"moves":[122],"along":[123],"alignment":[127],"user-defined":[129],"steps":[130],"size.":[134],"As":[135],"Python-based":[137],"cross-platform":[138],"program,":[139],"works":[141],"Windows,":[143],"MacOS":[144],"X":[145],"GNU/Linux.":[147],"The":[148],"implementation":[149],"this":[151],"is":[153],"publicly":[154],"available":[155],"GitHub":[157],"(https://github.com/tahiri-lab/aPhylogeo).":[158],"Second,":[159],"present":[161],"an":[162],"example":[163],"our":[167],"new":[168],"real":[172],"data":[173],"(SARS-CoV-2)":[174],"occurrence":[178],"variants.":[181]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
