{"id":"https://openalex.org/W4224052479","doi":"https://doi.org/10.1186/s12859-022-04632-y","title":"COVID-profiler: a webserver for the analysis of SARS-CoV-2 sequencing data","display_name":"COVID-profiler: a webserver for the analysis of SARS-CoV-2 sequencing data","publication_year":2022,"publication_date":"2022-04-15","ids":{"openalex":"https://openalex.org/W4224052479","doi":"https://doi.org/10.1186/s12859-022-04632-y","pmid":"https://pubmed.ncbi.nlm.nih.gov/35428185"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-022-04632-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-04632-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04632-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04632-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5056485188","display_name":"Jody Phelan","orcid":"https://orcid.org/0000-0001-8323-7019"},"institutions":[{"id":"https://openalex.org/I124357947","display_name":"University of London","ror":"https://ror.org/04cw6st05","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947"]},{"id":"https://openalex.org/I4210089966","display_name":"London School of Hygiene & Tropical Medicine","ror":"https://ror.org/00a0jsq62","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Jody Phelan","raw_affiliation_strings":["Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK. jody.phelan@lshtm.ac.uk","Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK"],"raw_orcid":"https://orcid.org/0000-0001-8323-7019","affiliations":[{"raw_affiliation_string":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK. jody.phelan@lshtm.ac.uk","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]},{"raw_affiliation_string":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010910957","display_name":"Wouter Deelder","orcid":"https://orcid.org/0000-0002-2989-0495"},"institutions":[{"id":"https://openalex.org/I124357947","display_name":"University of London","ror":"https://ror.org/04cw6st05","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947"]},{"id":"https://openalex.org/I2800852415","display_name":"Dalberg Global Development Advisors","ror":"https://ror.org/04j0zpz40","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I2800852415"]},{"id":"https://openalex.org/I4210089966","display_name":"London School of Hygiene & Tropical Medicine","ror":"https://ror.org/00a0jsq62","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}],"countries":["CH","GB"],"is_corresponding":false,"raw_author_name":"Wouter Deelder","raw_affiliation_strings":["Dalberg Advisors, 7 Rue de Chantepoulet, CH-1201, Geneva, Switzerland","Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalberg Advisors, 7 Rue de Chantepoulet, CH-1201, Geneva, Switzerland","institution_ids":["https://openalex.org/I2800852415"]},{"raw_affiliation_string":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102909255","display_name":"Daniel Ward","orcid":"https://orcid.org/0000-0003-2571-3114"},"institutions":[{"id":"https://openalex.org/I124357947","display_name":"University of London","ror":"https://ror.org/04cw6st05","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947"]},{"id":"https://openalex.org/I4210089966","display_name":"London School of Hygiene & Tropical Medicine","ror":"https://ror.org/00a0jsq62","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Daniel Ward","raw_affiliation_strings":["Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021239624","display_name":"Susana Campino","orcid":"https://orcid.org/0000-0003-1403-6138"},"institutions":[{"id":"https://openalex.org/I124357947","display_name":"University of London","ror":"https://ror.org/04cw6st05","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947"]},{"id":"https://openalex.org/I4210089966","display_name":"London School of Hygiene & Tropical Medicine","ror":"https://ror.org/00a0jsq62","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Susana Campino","raw_affiliation_strings":["Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002784988","display_name":"Martin L. Hibberd","orcid":"https://orcid.org/0000-0001-8587-1849"},"institutions":[{"id":"https://openalex.org/I124357947","display_name":"University of London","ror":"https://ror.org/04cw6st05","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947"]},{"id":"https://openalex.org/I4210089966","display_name":"London School of Hygiene & Tropical Medicine","ror":"https://ror.org/00a0jsq62","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Martin L. Hibberd","raw_affiliation_strings":["Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048799943","display_name":"Taane G. Clark","orcid":"https://orcid.org/0000-0001-8985-9265"},"institutions":[{"id":"https://openalex.org/I124357947","display_name":"University of London","ror":"https://ror.org/04cw6st05","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947"]},{"id":"https://openalex.org/I4210089966","display_name":"London School of Hygiene & Tropical Medicine","ror":"https://ror.org/00a0jsq62","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Taane G. Clark","raw_affiliation_strings":["Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK. taane.clark@lshtm.ac.uk","Faculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK. taane.clark@lshtm.ac.uk","Faculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, Keppel Street, London, WC1E 7HT, UK. taane.clark@lshtm.ac.uk","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]},{"raw_affiliation_string":"Faculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK. taane.clark@lshtm.ac.uk","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]},{"raw_affiliation_string":"Faculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK","institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5048799943","https://openalex.org/A5056485188"],"corresponding_institution_ids":["https://openalex.org/I124357947","https://openalex.org/I4210089966"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.2898,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.52312552,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"23","issue":"1","first_page":"137","last_page":"137"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.7328000068664551,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.7328000068664551,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.08129999786615372,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.02850000001490116,"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/severe-acute-respiratory-syndrome-coronavirus-2","display_name":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)","score":0.5675728917121887},{"id":"https://openalex.org/keywords/coronavirus-disease-2019","display_name":"Coronavirus disease 2019 (COVID-19)","score":0.5661073327064514},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4946732223033905},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.45949628949165344},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4426414370536804},{"id":"https://openalex.org/keywords/pandemic","display_name":"Pandemic","score":0.4407917559146881},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4330739378929138},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.4318375885486603},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.41436925530433655},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.40037474036216736},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.28380894660949707},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.21938666701316833},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20405396819114685},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.19270500540733337},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09896817803382874},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.08911043405532837},{"id":"https://openalex.org/keywords/infectious-disease","display_name":"Infectious disease (medical specialty)","score":0.07972559332847595},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.07574620842933655}],"concepts":[{"id":"https://openalex.org/C3007834351","wikidata":"https://www.wikidata.org/wiki/Q82069695","display_name":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)","level":5,"score":0.5675728917121887},{"id":"https://openalex.org/C3008058167","wikidata":"https://www.wikidata.org/wiki/Q84263196","display_name":"Coronavirus disease 2019 (COVID-19)","level":4,"score":0.5661073327064514},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4946732223033905},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.45949628949165344},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4426414370536804},{"id":"https://openalex.org/C89623803","wikidata":"https://www.wikidata.org/wiki/Q12184","display_name":"Pandemic","level":5,"score":0.4407917559146881},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4330739378929138},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.4318375885486603},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.41436925530433655},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.40037474036216736},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.28380894660949707},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.21938666701316833},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20405396819114685},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.19270500540733337},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09896817803382874},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.08911043405532837},{"id":"https://openalex.org/C524204448","wikidata":"https://www.wikidata.org/wiki/Q788926","display_name":"Infectious disease (medical specialty)","level":3,"score":0.07972559332847595},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.07574620842933655},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"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":"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":"D010802","descriptor_name":"Phylogeny","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":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","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":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-022-04632-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-04632-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04632-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35428185","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35428185","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:researchonline.lshtm.ac.uk:4665827","is_oa":false,"landing_page_url":"https://orcid.org/0000-0001-8323-7019>;","pdf_url":null,"source":{"id":"https://openalex.org/S4306402527","display_name":"LSHTM Research Online (London School of Hygiene and Tropical Medicine)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210089966","host_organization_name":"London School of Hygiene & Tropical Medicine","host_organization_lineage":["https://openalex.org/I4210089966"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:doaj.org/article:d6eea7b4eda848eebe4f42b77ac5c2e3","is_oa":true,"landing_page_url":"https://doaj.org/article/d6eea7b4eda848eebe4f42b77ac5c2e3","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,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 23, Iss 1, Pp 1-5 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9012066","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9012066","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,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-022-04632-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-04632-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04632-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.8399999737739563,"display_name":"Good health and well-being"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320314731","display_name":"UK Research and Innovation","ror":"https://ror.org/001aqnf71"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4224052479.pdf","grobid_xml":"https://content.openalex.org/works/W4224052479.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W2102619694","https://openalex.org/W2131271579","https://openalex.org/W2150131459","https://openalex.org/W2315002870","https://openalex.org/W2789843538","https://openalex.org/W2792034759","https://openalex.org/W2952045272","https://openalex.org/W3005235420","https://openalex.org/W3025762731","https://openalex.org/W3120518194","https://openalex.org/W3140771093","https://openalex.org/W3157228095"],"related_works":["https://openalex.org/W3136336094","https://openalex.org/W4200558412","https://openalex.org/W3165628818","https://openalex.org/W3037187668","https://openalex.org/W3131084444","https://openalex.org/W4281257067","https://openalex.org/W4281740907","https://openalex.org/W3118468330","https://openalex.org/W3135485202","https://openalex.org/W3117641683"],"abstract_inverted_index":{"BACKGROUND:":[0],"SARS-CoV-2":[1],"virus":[2],"sequencing":[3,25,56],"has":[4],"been":[5],"applied":[6,76],"to":[7,33,77],"track":[8],"the":[9,15,36],"COVID-19":[10],"pandemic":[11],"spread":[12],"and":[13,22,67],"assist":[14,34],"development":[16],"of":[17,39],"PCR-based":[18],"diagnostics,":[19],"serological":[20],"assays,":[21],"vaccines.":[23],"With":[24],"becoming":[26],"routine":[27],"globally,":[28],"bioinformatic":[29,48],"tools":[30],"are":[31],"needed":[32],"in":[35],"robust":[37],"processing":[38],"resulting":[40],"genomic":[41],"data.":[42],"RESULTS:":[43],"We":[44],"developed":[45],"a":[46],"web-based":[47],"pipeline":[49,72],"(\"COVID-Profiler\")":[50],"that":[51],"inputs":[52],"raw":[53,59],"or":[54],"assembled":[55],"data,":[57],"displays":[58],"alignments":[60],"for":[61],"quality":[62],"control,":[63],"annotates":[64],"mutations":[65],"found":[66],"performs":[68],"phylogenetic":[69],"analysis.":[70],"The":[71,83,90],"software":[73],"can":[74],"be":[75],"other":[78],"(re-)":[79],"emerging":[80],"pathogens.":[81],"CONCLUSIONS:":[82],"webserver":[84],"is":[85,93],"available":[86,94],"at":[87,95],"http://genomics.lshtm.ac.uk/":[88],".":[89,97],"source":[91],"code":[92],"https://github.com/jodyphelan/covid-profiler":[96]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
