{"id":"https://openalex.org/W2914501355","doi":"https://doi.org/10.1080/22221751.2019.1575700","title":"Genetic diversity and host adaptation of avian H5N1 influenza viruses during human infection","display_name":"Genetic diversity and host adaptation of avian H5N1 influenza viruses during human infection","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2914501355","doi":"https://doi.org/10.1080/22221751.2019.1575700","mag":"2914501355","pmid":"https://pubmed.ncbi.nlm.nih.gov/30866780","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/6455201"},"language":"en","primary_location":{"id":"doi:10.1080/22221751.2019.1575700","doi":"https://doi.org/10.1080/22221751.2019.1575700","is_oa":true,"landing_page_url":"https://doi.org/10.1080/22221751.2019.1575700","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/22221751.2019.1575700?needAccess=true","source":{"id":"https://openalex.org/S2764760790","display_name":"Emerging Microbes & Infections","issn_l":"2222-1751","issn":["2222-1751"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-1","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Emerging Microbes & Infections","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.tandfonline.com/doi/pdf/10.1080/22221751.2019.1575700?needAccess=true","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5037709591","display_name":"Matthijs R. A. Welkers","orcid":"https://orcid.org/0000-0002-2982-0278","observed_orcids":["https://orcid.org/0000-0002-2982-0278"]},"institutions":[{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Matthijs R.A. Welkers","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":"https://orcid.org/0000-0002-2982-0278","affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033693516","display_name":"Hana Apsari Pawestri","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210135589","display_name":"Kementerian Kesehatan Republik Indonesia","ror":"https://ror.org/03r419717","country_code":"ID","type":"government","lineage":["https://openalex.org/I4210135589"]}],"countries":["ID"],"is_corresponding":false,"raw_author_name":"Hana A. Pawestri","raw_affiliation_strings":["National Institute of Health Research and Development, Ministry of Health","National Institute of Health Research and Development, Ministry of Health, Jakarta, Indonesia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Institute of Health Research and Development, Ministry of Health","institution_ids":[]},{"raw_affiliation_string":"National Institute of Health Research and Development, Ministry of Health, Jakarta, Indonesia","institution_ids":["https://openalex.org/I4210135589"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044389492","display_name":"Judy M. Fonville","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]},{"id":"https://openalex.org/I4210147993","display_name":"PAMM","ror":"https://ror.org/05mggs005","country_code":"NL","type":"facility","lineage":["https://openalex.org/I4210147993"]}],"countries":["GB","NL"],"is_corresponding":false,"raw_author_name":"Judy M. Fonville","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, PAMM","Department of Zoology, University of Cambridge","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","Department of Medical Microbiology, PAMM, Veldhoven, Netherlands","Department of Zoology, University of Cambridge, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, PAMM","institution_ids":["https://openalex.org/I4210147993"]},{"raw_affiliation_string":"Department of Zoology, University of Cambridge","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, PAMM, Veldhoven, Netherlands","institution_ids":["https://openalex.org/I4210147993"]},{"raw_affiliation_string":"Department of Zoology, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036704890","display_name":"Ondri Dwi Sampurno","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210135589","display_name":"Kementerian Kesehatan Republik Indonesia","ror":"https://ror.org/03r419717","country_code":"ID","type":"government","lineage":["https://openalex.org/I4210135589"]}],"countries":["ID"],"is_corresponding":false,"raw_author_name":"Ondri D. Sampurno","raw_affiliation_strings":["National Institute of Health Research and Development, Ministry of Health","National Institute of Health Research and Development, Ministry of Health, Jakarta, Indonesia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Institute of Health Research and Development, Ministry of Health","institution_ids":[]},{"raw_affiliation_string":"National Institute of Health Research and Development, Ministry of Health, Jakarta, Indonesia","institution_ids":["https://openalex.org/I4210135589"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006191557","display_name":"Maarten Pater","orcid":"https://orcid.org/0000-0002-1493-5670","observed_orcids":["https://orcid.org/0000-0002-1493-5670"]},"institutions":[{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Maarten Pater","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008108793","display_name":"Melle Holwerda","orcid":"https://orcid.org/0000-0002-9814-7793","observed_orcids":["https://orcid.org/0000-0002-9814-7793"]},"institutions":[{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Melle Holwerda","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021505480","display_name":"Alvin X. Han","orcid":"https://orcid.org/0000-0001-6281-8498","observed_orcids":["https://orcid.org/0000-0001-6281-8498"]},"institutions":[{"id":"https://openalex.org/I115228651","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09","country_code":"SG","type":"government","lineage":["https://openalex.org/I115228651"]},{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]},{"id":"https://openalex.org/I4210148498","display_name":"Bioinformatics Institute","ror":"https://ror.org/044w3nw43","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I4210148498"]}],"countries":["NL","SG"],"is_corresponding":false,"raw_author_name":"Alvin X. Han","raw_affiliation_strings":["Bioinformatics Institute, A*STAR","Department of Medical Microbiology, Academic Medical Center","Bioinformatics Institute, A*STAR, Singapore, Singapore","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":"https://orcid.org/0000-0001-6281-8498","affiliations":[{"raw_affiliation_string":"Bioinformatics Institute, A*STAR","institution_ids":["https://openalex.org/I115228651","https://openalex.org/I4210148498"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Bioinformatics Institute, A*STAR, Singapore, Singapore","institution_ids":["https://openalex.org/I115228651","https://openalex.org/I4210148498"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009802857","display_name":"Colin A. Russell","orcid":"https://orcid.org/0000-0002-2113-162X","observed_orcids":["https://orcid.org/0000-0002-2113-162X"]},"institutions":[{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Colin A. Russell","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":"https://orcid.org/0000-0002-2113-162X","affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090186785","display_name":"Rienk E. Jeeninga","orcid":"https://orcid.org/0000-0003-2400-1035","observed_orcids":["https://orcid.org/0000-0003-2400-1035"]},"institutions":[{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Rienk E. Jeeninga","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089555448","display_name":"Vivi Setiawaty","orcid":"https://orcid.org/0000-0002-1196-7909","observed_orcids":["https://orcid.org/0000-0002-1196-7909"]},"institutions":[{"id":"https://openalex.org/I4210135589","display_name":"Kementerian Kesehatan Republik Indonesia","ror":"https://ror.org/03r419717","country_code":"ID","type":"government","lineage":["https://openalex.org/I4210135589"]}],"countries":["ID"],"is_corresponding":false,"raw_author_name":"Vivi Setiawaty","raw_affiliation_strings":["National Institute of Health Research and Development, Ministry of Health","National Institute of Health Research and Development, Ministry of Health, Jakarta, Indonesia"],"raw_orcid":"https://orcid.org/0000-0002-1196-7909","affiliations":[{"raw_affiliation_string":"National Institute of Health Research and Development, Ministry of Health","institution_ids":[]},{"raw_affiliation_string":"National Institute of Health Research and Development, Ministry of Health, Jakarta, Indonesia","institution_ids":["https://openalex.org/I4210135589"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075604032","display_name":"Menno D. de Jong","orcid":"https://orcid.org/0000-0002-8380-4738","observed_orcids":["https://orcid.org/0000-0002-8380-4738","https://orcid.org/0000-0002-5339-1995"]},"institutions":[{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Menno D. de Jong","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":"https://orcid.org/0000-0002-8380-4738","affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087249419","display_name":"Dirk Eggink","orcid":"https://orcid.org/0000-0002-4248-6008","observed_orcids":["https://orcid.org/0000-0002-4248-6008"]},"institutions":[{"id":"https://openalex.org/I2802928900","display_name":"Amsterdam UMC Location University of Amsterdam","ror":"https://ror.org/03t4gr691","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2802928900","https://openalex.org/I4210151833"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Dirk Eggink","raw_affiliation_strings":["Department of Medical Microbiology, Academic Medical Center","Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands"],"raw_orcid":"https://orcid.org/0000-0002-4248-6008","affiliations":[{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center","institution_ids":["https://openalex.org/I2802928900"]},{"raw_affiliation_string":"Department of Medical Microbiology, Academic Medical Center, Amsterdam, Netherlands","institution_ids":["https://openalex.org/I2802928900"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5075604032","https://openalex.org/A5087249419"],"corresponding_institution_ids":["https://openalex.org/I2802928900"],"apc_list":{"value":2155,"currency":"GBP","value_usd":2643},"apc_paid":{"value":2155,"currency":"GBP","value_usd":2643},"fwci":4.5873,"has_fulltext":true,"cited_by_count":41,"citation_normalized_percentile":{"value":0.95307039,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":88,"max":99},"biblio":{"volume":"8","issue":"1","first_page":"262","last_page":"271"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10167","display_name":"Influenza Virus Research Studies","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10167","display_name":"Influenza Virus Research Studies","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.0,"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/T11135","display_name":"Virology and Viral Diseases","score":0.0,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/h5n1-influenza-virus","display_name":"H5N1 influenza virus","score":0.8379999995231628},{"id":"https://openalex.org/keywords/avian-influenza","display_name":"avian influenza","score":0.8740000128746033},{"id":"https://openalex.org/keywords/human-infection","display_name":"human infection","score":0.8259999752044678},{"id":"https://openalex.org/keywords/within-host-viral-diversity","display_name":"within-host viral diversity","score":0.8880000114440918},{"id":"https://openalex.org/keywords/host-adaptation","display_name":"host adaptation","score":0.8420000076293945},{"id":"https://openalex.org/keywords/viral-evolution","display_name":"viral evolution","score":0.6769999861717224},{"id":"https://openalex.org/keywords/polymerase-activity","display_name":"polymerase activity","score":0.7310000061988831},{"id":"https://openalex.org/keywords/pb2","display_name":"Pb2+","score":0.6629999876022339},{"id":"https://openalex.org/keywords/pb1","display_name":"PB1","score":1.0},{"id":"https://openalex.org/keywords/pa","display_name":"PA","score":0.949999988079071},{"id":"https://openalex.org/keywords/amino-acid-variants","display_name":"amino acid variants","score":0.9350000023841858},{"id":"https://openalex.org/keywords/airborne-transmission","display_name":"airborne transmission","score":0.8130000233650208},{"id":"https://openalex.org/keywords/ferrets","display_name":"ferrets","score":0.7519999742507935}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7729870080947876},{"id":"https://openalex.org/C519248777","wikidata":"https://www.wikidata.org/wiki/Q160122","display_name":"Influenza A virus subtype H5N1","level":3,"score":0.7610483765602112},{"id":"https://openalex.org/C60987743","wikidata":"https://www.wikidata.org/wiki/Q1460232","display_name":"Virulence","level":3,"score":0.5951793789863586},{"id":"https://openalex.org/C2776914050","wikidata":"https://www.wikidata.org/wiki/Q19597524","display_name":"Host adaptation","level":4,"score":0.5919987559318542},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.5618025064468384},{"id":"https://openalex.org/C82381507","wikidata":"https://www.wikidata.org/wiki/Q416878","display_name":"Polymerase","level":3,"score":0.5459134578704834},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.49127906560897827},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4834185838699341},{"id":"https://openalex.org/C2777546802","wikidata":"https://www.wikidata.org/wiki/Q834390","display_name":"Influenza A virus","level":3,"score":0.4649074971675873},{"id":"https://openalex.org/C139807058","wikidata":"https://www.wikidata.org/wiki/Q352374","display_name":"Adaptation (eye)","level":2,"score":0.4644935429096222},{"id":"https://openalex.org/C126831891","wikidata":"https://www.wikidata.org/wiki/Q221673","display_name":"Host (biology)","level":2,"score":0.4569428861141205},{"id":"https://openalex.org/C81977670","wikidata":"https://www.wikidata.org/wiki/Q585259","display_name":"Genetic diversity","level":3,"score":0.43458667397499084},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.41528183221817017},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.38609370589256287},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.13527902960777283},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.053568869829177856},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.0},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000073336","descriptor_name":"Whole Genome Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007214","descriptor_name":"Indonesia","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007251","descriptor_name":"Influenza, Human","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019943","descriptor_name":"Amino Acid Substitution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053124","descriptor_name":"Influenza A Virus, H5N1 Subtype","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D053124","descriptor_name":"Influenza A Virus, H5N1 Subtype","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053124","descriptor_name":"Influenza A Virus, H5N1 Subtype","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D057809","descriptor_name":"HEK293 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":8,"locations":[{"id":"doi:10.1080/22221751.2019.1575700","doi":"https://doi.org/10.1080/22221751.2019.1575700","is_oa":true,"landing_page_url":"https://doi.org/10.1080/22221751.2019.1575700","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/22221751.2019.1575700?needAccess=true","source":{"id":"https://openalex.org/S2764760790","display_name":"Emerging Microbes & Infections","issn_l":"2222-1751","issn":["2222-1751"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-1","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Emerging Microbes & Infections","raw_type":"journal-article"},{"id":"pmh:oai:europepmc.org:5453491","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6455201","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,"listed_in":[],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6455201","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6455201","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Emerg Microbes Infect","raw_type":"Text"},{"id":"pmid:30866780","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30866780","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,"listed_in":[],"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":"Emerging microbes & infections","raw_type":"Journal Article"},{"id":"pmh:oai:pure.amsterdamumc.nl:openaire/8f0b29b6-6fdb-40af-8f0c-524c1e44411d","doi":null,"is_oa":true,"landing_page_url":"https://pure.amsterdamumc.nl/en/publications/8f0b29b6-6fdb-40af-8f0c-524c1e44411d","pdf_url":"https://pure.amsterdamumc.nl/files/157522613/Genetic-diversity-and-host-adaptation-of-avian-h5n1-influenza-viruses-during-human-infection.pdf","source":{"id":"https://openalex.org/S7407055222","display_name":"Pure Amsterdam UMC","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Welkers, M R A, Pawestri, H A, Fonville, J M, Sampurno, O D, Pater, M, Holwerda, M, Han, A X, Russell, C A, Jeeninga, R E, Setiawaty, V, de Jong, M D & Eggink, D 2019, 'Genetic diversity and host adaptation of avian H5N1 influenza viruses during human infection', Emerging microbes & infections, vol. 8, no. 1, pp. 262-271. https://doi.org/10.1080/22221751.2019.1575700","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:amcpub:oai:pure.amc.nl:publications/d291c393-9dd2-4677-b17e-629572c9b6e7","doi":null,"is_oa":true,"landing_page_url":"https://pure.amc.nl/en/publications/genetic-diversity-and-host-adaptation-of-avian-h5n1-influenza-viruses-during-human-infection(d291c393-9dd2-4677-b17e-629572c9b6e7).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Emerging microbes & infections, 8(1), 262 - 271. Nature Publishing Group","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:712f439daf674623b0a0add46fe1fbc9","doi":null,"is_oa":false,"landing_page_url":"https://doaj.org/article/712f439daf674623b0a0add46fe1fbc9","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"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":"Emerging Microbes and Infections, Vol 8, Iss 1, Pp 262-271 (2019)","raw_type":"article"},{"id":"pmh:vumc:oai:pure.atira.dk:publications/ac86ca64-60ed-4320-8731-f406c7d74722","doi":null,"is_oa":true,"landing_page_url":"https://research.vumc.nl/en/publications/ac86ca64-60ed-4320-8731-f406c7d74722","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Emerging Microbes and Infections, 8(1), 262 - 271","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1080/22221751.2019.1575700","doi":"https://doi.org/10.1080/22221751.2019.1575700","is_oa":true,"landing_page_url":"https://doi.org/10.1080/22221751.2019.1575700","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/22221751.2019.1575700?needAccess=true","source":{"id":"https://openalex.org/S2764760790","display_name":"Emerging Microbes & Infections","issn_l":"2222-1751","issn":["2222-1751"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["cwts-core","doaj","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-1","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Emerging Microbes & Infections","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.5683000087738037,"id":"https://metadata.un.org/sdg/3"}],"study_designs":[{"display_name":"Observational Study","id":"https://openalex.org/study-designs/observational-study"}],"awards":[{"id":"https://openalex.org/G3392934678","display_name":"European Management Platform for Emerging and Re-emerging Infectious disease Entities","funder_award_id":"223498","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G4937468798","display_name":null,"funder_award_id":"H2020","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5531057035","display_name":"Quantifying pandemic risk caused by within-host evolution of influenza A/H5N1 viruses","funder_award_id":"MR/K021885/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G633704252","display_name":"ANTIcipating the Global Onset of Novel Epidemics","funder_award_id":"278976","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320934","display_name":"Koninklijke Nederlandse Akademie van Wetenschappen","ror":"https://ror.org/043c0p156"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2914501355.pdf","grobid_xml":"https://content.openalex.org/works/W2914501355.grobid-xml"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W1603867145","https://openalex.org/W1964355161","https://openalex.org/W1990273710","https://openalex.org/W1992439635","https://openalex.org/W1996109976","https://openalex.org/W1996824979","https://openalex.org/W2007359216","https://openalex.org/W2020316997","https://openalex.org/W2023451306","https://openalex.org/W2024970913","https://openalex.org/W2034538152","https://openalex.org/W2041652700","https://openalex.org/W2044594287","https://openalex.org/W2045139944","https://openalex.org/W2048967324","https://openalex.org/W2069322612","https://openalex.org/W2071644795","https://openalex.org/W2071687412","https://openalex.org/W2076215076","https://openalex.org/W2094757978","https://openalex.org/W2103441770","https://openalex.org/W2108234281","https://openalex.org/W2112170460","https://openalex.org/W2125375614","https://openalex.org/W2129274180","https://openalex.org/W2150485802","https://openalex.org/W2153782171","https://openalex.org/W2158112812","https://openalex.org/W2171426080","https://openalex.org/W2224084604","https://openalex.org/W2339753844","https://openalex.org/W2341470313","https://openalex.org/W2804435636","https://openalex.org/W2888539004"],"related_works":["https://openalex.org/W3000728003","https://openalex.org/W2339753844","https://openalex.org/W2806041621","https://openalex.org/W2888539004","https://openalex.org/W3029620124","https://openalex.org/W2925200097","https://openalex.org/W2136878045","https://openalex.org/W7139974946","https://openalex.org/W7171676380","https://openalex.org/W7213343278"],"abstract_inverted_index":{"The":[0],"continuing":[1],"pandemic":[2],"threat":[3],"posed":[4],"by":[5],"avian":[6,82],"influenza":[7],"A/H5N1":[8],"viruses":[9],"calls":[10],"for":[11,112,129],"improved":[12],"insights":[13],"into":[14],"their":[15,130],"evolution":[16],"during":[17,179],"human":[18,80,136,180],"infection.":[19],"We":[20,84,138],"performed":[21],"whole":[22],"genome":[23,45],"deep":[24],"sequencing":[25],"of":[26,44,79,108,162,188],"respiratory":[27],"specimens":[28],"from":[29,33],"44":[30],"H5N1-infected":[31],"individuals":[32],"Indonesia":[34],"and":[35,92,126,167,184],"found":[36,72,121],"substantial":[37],"within-host":[38],"viral":[39],"diversity.":[40],"At":[41],"nearly":[42],"30%":[43],"positions":[46,57],"multiple":[47,93,140],"amino":[48,89,118,142],"acids":[49],"were":[50,70],"observed":[51],"within":[52],"or":[53],"across":[54],"samples,":[55],"including":[56,155],"implicated":[58],"in":[59,75,97,101,122,135,145],"aerosol":[60],"transmission":[61],"between":[62],"ferrets.":[63],"Amino":[64],"acid":[65,90,119,143],"variants":[66,91,94,120,144],"detected":[67],"our":[68],"cohort":[69],"often":[71],"more":[73],"frequently":[74],"available":[76,102],"H5N1":[77,181],"sequences":[78],"than":[81],"isolates.":[83],"additionally":[85],"identified":[86,139],"previously":[87,189],"unreported":[88],"that":[95,150,161],"increased":[96],"proportion":[98],"over":[99],"time":[100],"sequential":[103],"samples.":[104],"Given":[105],"the":[106,109,123,163,185],"importance":[107],"polymerase":[110,133,148,153],"complex":[111],"host":[113],"adaptation,":[114],"we":[115],"tested":[116],"121":[117],"PB2,":[124],"PB1":[125],"PA":[127],"subunits":[128,149],"effects":[131,158],"on":[132],"activity":[134,154],"cells.":[137],"single":[141],"all":[146],"three":[147],"substantially":[151],"increase":[152],"some":[156],"with":[157],"comparable":[159],"to":[160],"widely":[164],"recognized":[165],"adaption":[166],"virulence":[168],"marker":[169],"PB2-E627":[170],"K.":[171],"These":[172],"results":[173],"indicate":[174],"highly":[175],"dynamic":[176],"evolutionary":[177],"processes":[178],"virus":[182],"infection":[183],"potential":[186],"existence":[187],"undocumented":[190],"adaptive":[191],"pathways.":[192]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":11},{"year":2019,"cited_by_count":6}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2019-02-21T00:00:00"}