{"id":"https://openalex.org/W2175094144","doi":"https://doi.org/10.1093/bioinformatics/btv681","title":"JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison","display_name":"JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison","publication_year":2015,"publication_date":"2015-11-16","ids":{"openalex":"https://openalex.org/W2175094144","doi":"https://doi.org/10.1093/bioinformatics/btv681","mag":"2175094144","pmid":"https://pubmed.ncbi.nlm.nih.gov/26576653"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv681","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv681","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/929/49018414/bioinformatics_32_6_929.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/929/49018414/bioinformatics_32_6_929.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101819290","display_name":"Michael Richter","orcid":"https://orcid.org/0000-0001-8702-4416"},"institutions":[{"id":"https://openalex.org/I4210105988","display_name":"Ribocon (Germany)","ror":"https://ror.org/01gdx5384","country_code":"DE","type":"company","lineage":["https://openalex.org/I4210105988"]},{"id":"https://openalex.org/I4210118720","display_name":"Fahrenheit (Germany)","ror":"https://ror.org/02b08tk40","country_code":"DE","type":"company","lineage":["https://openalex.org/I4210118720"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Michael Richter","raw_affiliation_strings":["1 Ribocon GmbH, Fahrenheitstra\u00dfe. 1, 28359 Bremen, Germany,"],"affiliations":[{"raw_affiliation_string":"1 Ribocon GmbH, Fahrenheitstra\u00dfe. 1, 28359 Bremen, Germany,","institution_ids":["https://openalex.org/I4210105988","https://openalex.org/I4210118720"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064105551","display_name":"Ramon Rossell\u00f3\u2010M\u00f3ra","orcid":"https://orcid.org/0000-0001-8253-3107"},"institutions":[{"id":"https://openalex.org/I4210116941","display_name":"Mediterranean Institute for Advanced Studies","ror":"https://ror.org/02e9dby02","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210116941","https://openalex.org/I50441567"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Ramon Rossell\u00f3-M\u00f3ra","raw_affiliation_strings":["2 Marine Microbiology Group, Mediterranean Institute for Advanced Studies, C/ Miquel Marqu\u00e9s, 21, 07190, Esporles, Spain,"],"affiliations":[{"raw_affiliation_string":"2 Marine Microbiology Group, Mediterranean Institute for Advanced Studies, C/ Miquel Marqu\u00e9s, 21, 07190, Esporles, Spain,","institution_ids":["https://openalex.org/I4210116941"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091470163","display_name":"Frank Oliver Gl\u00f6ckner","orcid":"https://orcid.org/0000-0001-8528-9023"},"institutions":[{"id":"https://openalex.org/I4210103014","display_name":"Max Planck Institute for Marine Microbiology","ror":"https://ror.org/02385fa51","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210103014"]},{"id":"https://openalex.org/I193619901","display_name":"Constructor University","ror":"https://ror.org/02yrs2n53","country_code":"DE","type":"education","lineage":["https://openalex.org/I193619901"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Frank Oliver Gl\u00f6ckner","raw_affiliation_strings":["3 Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstra\u00dfe 1, 28359 Bremen, Germany and","4 Jacobs University gGmbH Bremen, Department of Life Sciences and Chemistry, Campus Ring 1, 28759 Bremen, Germany"],"affiliations":[{"raw_affiliation_string":"3 Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstra\u00dfe 1, 28359 Bremen, Germany and","institution_ids":["https://openalex.org/I4210103014"]},{"raw_affiliation_string":"4 Jacobs University gGmbH Bremen, Department of Life Sciences and Chemistry, Campus Ring 1, 28759 Bremen, Germany","institution_ids":["https://openalex.org/I193619901"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040031141","display_name":"J\u00f6rg Peplies","orcid":"https://orcid.org/0000-0001-6154-4886"},"institutions":[{"id":"https://openalex.org/I4210105988","display_name":"Ribocon (Germany)","ror":"https://ror.org/01gdx5384","country_code":"DE","type":"company","lineage":["https://openalex.org/I4210105988"]},{"id":"https://openalex.org/I4210118720","display_name":"Fahrenheit (Germany)","ror":"https://ror.org/02b08tk40","country_code":"DE","type":"company","lineage":["https://openalex.org/I4210118720"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"J\u00f6rg Peplies","raw_affiliation_strings":["1 Ribocon GmbH, Fahrenheitstra\u00dfe. 1, 28359 Bremen, Germany,"],"affiliations":[{"raw_affiliation_string":"1 Ribocon GmbH, Fahrenheitstra\u00dfe. 1, 28359 Bremen, Germany,","institution_ids":["https://openalex.org/I4210105988","https://openalex.org/I4210118720"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5101819290"],"corresponding_institution_ids":["https://openalex.org/I4210105988","https://openalex.org/I4210118720"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":37.5088,"has_fulltext":true,"cited_by_count":2785,"citation_normalized_percentile":{"value":0.99888757,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"32","issue":"6","first_page":"929","last_page":"931"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10141","display_name":"Probiotics and Fermented Foods","score":0.9894999861717224,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food 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"}},{"id":"https://openalex.org/T12388","display_name":"Identification and Quantification in Food","score":0.9869999885559082,"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/genome","display_name":"Genome","score":0.7577760219573975},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.570862889289856},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5510424375534058},{"id":"https://openalex.org/keywords/circumscription","display_name":"Circumscription","score":0.5457096695899963},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.488800972700119},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4462859034538269},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4419502913951874},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.4101712703704834},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3415732979774475},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2593514323234558},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.21571451425552368},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.18307361006736755},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.12914758920669556},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09402391314506531}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7577760219573975},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.570862889289856},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5510424375534058},{"id":"https://openalex.org/C62360110","wikidata":"https://www.wikidata.org/wiki/Q96777007","display_name":"Circumscription","level":2,"score":0.5457096695899963},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.488800972700119},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4462859034538269},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4419502913951874},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.4101712703704834},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3415732979774475},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2593514323234558},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.21571451425552368},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.18307361006736755},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.12914758920669556},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09402391314506531}],"mesh":[{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011387","descriptor_name":"Prokaryotic Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011387","descriptor_name":"Prokaryotic Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011387","descriptor_name":"Prokaryotic Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btv681","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv681","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/929/49018414/bioinformatics_32_6_929.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26576653","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26576653","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:digital.csic.es:10261/152499","is_oa":false,"landing_page_url":"http://hdl.handle.net/10261/152499","pdf_url":null,"source":{"id":"https://openalex.org/S4306400616","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"art\u00edculo"},{"id":"pmh:oai:europepmc.org:5027273","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5939971","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":"","raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/6/929","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/6/929","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"},{"id":"pmh:oai:pubmedcentral.nih.gov:5939971","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5939971","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv681","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv681","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/6/929/49018414/bioinformatics_32_6_929.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.550000011920929}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2175094144.pdf","grobid_xml":"https://content.openalex.org/works/W2175094144.grobid-xml"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W2028513472","https://openalex.org/W2036562529","https://openalex.org/W2076027587","https://openalex.org/W2079222081","https://openalex.org/W2095513921","https://openalex.org/W2097477547","https://openalex.org/W2098969756","https://openalex.org/W2107282968","https://openalex.org/W2116206245","https://openalex.org/W2119888547","https://openalex.org/W2127036970","https://openalex.org/W2142678478","https://openalex.org/W2158714788"],"related_works":["https://openalex.org/W2097297915","https://openalex.org/W1505443365","https://openalex.org/W1279140112","https://openalex.org/W1792738922","https://openalex.org/W1998363560","https://openalex.org/W2039438726","https://openalex.org/W54673468","https://openalex.org/W144271035","https://openalex.org/W2909040123","https://openalex.org/W4234342421"],"abstract_inverted_index":{"mrichter@ribocon.com.":[0]},"counts_by_year":[{"year":2026,"cited_by_count":66},{"year":2025,"cited_by_count":379},{"year":2024,"cited_by_count":391},{"year":2023,"cited_by_count":362},{"year":2022,"cited_by_count":367},{"year":2021,"cited_by_count":367},{"year":2020,"cited_by_count":313},{"year":2019,"cited_by_count":284},{"year":2018,"cited_by_count":160},{"year":2017,"cited_by_count":70},{"year":2016,"cited_by_count":23},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-03-04T09:10:02.777135","created_date":"2025-10-10T00:00:00"}