{"id":"https://openalex.org/W2808291890","doi":"https://doi.org/10.1093/bioinformatics/bty262","title":"HFSP: high speed homology-driven function annotation of proteins","display_name":"HFSP: high speed homology-driven function annotation of proteins","publication_year":2018,"publication_date":"2018-04-19","ids":{"openalex":"https://openalex.org/W2808291890","doi":"https://doi.org/10.1093/bioinformatics/bty262","mag":"2808291890","pmid":"https://pubmed.ncbi.nlm.nih.gov/29950013"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty262","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty262","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/13/i304/25098619/bty262.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/34/13/i304/25098619/bty262.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090706824","display_name":"Yannick Mahlich","orcid":"https://orcid.org/0000-0002-0717-2927"},"institutions":[{"id":"https://openalex.org/I102322142","display_name":"Rutgers, The State University of New Jersey","ror":"https://ror.org/05vt9qd57","country_code":"US","type":"education","lineage":["https://openalex.org/I102322142"]},{"id":"https://openalex.org/I4210137766","display_name":"Institute for Advanced Study","ror":"https://ror.org/03xg85719","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210137766"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE","US"],"is_corresponding":true,"raw_author_name":"Yannick Mahlich","raw_affiliation_strings":["Computational Biology & Bioinformatics - i12\u00a0Informatics, Technical University of Munich (TUM), Munich, Germany","Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, USA","Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology & Bioinformatics - i12\u00a0Informatics, Technical University of Munich (TUM), Munich, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, USA","institution_ids":["https://openalex.org/I102322142"]},{"raw_affiliation_string":"Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany","institution_ids":["https://openalex.org/I4210137766","https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019985343","display_name":"Martin Steinegger","orcid":"https://orcid.org/0000-0001-8781-9753"},"institutions":[{"id":"https://openalex.org/I139264467","display_name":"Seoul National University","ror":"https://ror.org/04h9pn542","country_code":"KR","type":"education","lineage":["https://openalex.org/I139264467"]},{"id":"https://openalex.org/I4210131661","display_name":"Max Planck Institute for Biophysical Chemistry","ror":"https://ror.org/03e76ya46","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210131661"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE","KR"],"is_corresponding":false,"raw_author_name":"Martin Steinegger","raw_affiliation_strings":["Computational Biology & Bioinformatics - i12\u00a0Informatics, Technical University of Munich (TUM), Munich, Germany","Department of Chemistry, Seoul National University, Seoul, Korea","Quantitative and Computational Biology Group, Max-Planck Institute for Biophysical Chemistry, G\u00f6ttingen, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology & Bioinformatics - i12\u00a0Informatics, Technical University of Munich (TUM), Munich, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Department of Chemistry, Seoul National University, Seoul, Korea","institution_ids":["https://openalex.org/I139264467"]},{"raw_affiliation_string":"Quantitative and Computational Biology Group, Max-Planck Institute for Biophysical Chemistry, G\u00f6ttingen, Germany","institution_ids":["https://openalex.org/I4210131661"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064905883","display_name":"Burkhard Rost","orcid":"https://orcid.org/0000-0003-0179-8424"},"institutions":[{"id":"https://openalex.org/I4210096322","display_name":"New York Structural Biology Center","ror":"https://ror.org/00new7409","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210096322"]},{"id":"https://openalex.org/I4210137766","display_name":"Institute for Advanced Study","ror":"https://ror.org/03xg85719","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210137766"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]},{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["DE","US"],"is_corresponding":false,"raw_author_name":"Burkhard Rost","raw_affiliation_strings":["Computational Biology & Bioinformatics - i12\u00a0Informatics, Technical University of Munich (TUM), Munich, Germany","Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA","Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany","New York Consortium on Membrane Protein Structure (NYCOMPS), New York, NY, USA","TUM School of Life Sciences Weihenstephan (WZW), Technical University Munich (TUM), Freising, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology & Bioinformatics - i12\u00a0Informatics, Technical University of Munich (TUM), Munich, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]},{"raw_affiliation_string":"Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany","institution_ids":["https://openalex.org/I4210137766","https://openalex.org/I62916508"]},{"raw_affiliation_string":"New York Consortium on Membrane Protein Structure (NYCOMPS), New York, NY, USA","institution_ids":["https://openalex.org/I4210096322"]},{"raw_affiliation_string":"TUM School of Life Sciences Weihenstephan (WZW), Technical University Munich (TUM), Freising, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089912529","display_name":"Yana Bromberg","orcid":"https://orcid.org/0000-0002-8351-0844"},"institutions":[{"id":"https://openalex.org/I102322142","display_name":"Rutgers, The State University of New Jersey","ror":"https://ror.org/05vt9qd57","country_code":"US","type":"education","lineage":["https://openalex.org/I102322142"]},{"id":"https://openalex.org/I40036882","display_name":"Institute for Advanced Study","ror":"https://ror.org/00f809463","country_code":"US","type":"facility","lineage":["https://openalex.org/I40036882"]},{"id":"https://openalex.org/I4210137766","display_name":"Institute for Advanced Study","ror":"https://ror.org/03xg85719","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210137766"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE","US"],"is_corresponding":true,"raw_author_name":"Yana Bromberg","raw_affiliation_strings":["Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, USA","Department of Genetics, Human Genetics Institute, Rutgers University, Piscataway, NJ, USA","Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany","Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, USA; Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, USA","institution_ids":["https://openalex.org/I102322142"]},{"raw_affiliation_string":"Department of Genetics, Human Genetics Institute, Rutgers University, Piscataway, NJ, USA","institution_ids":["https://openalex.org/I102322142"]},{"raw_affiliation_string":"Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany","institution_ids":["https://openalex.org/I4210137766","https://openalex.org/I62916508"]},{"raw_affiliation_string":"Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, USA; Institute for Advanced Study, Technical University of Munich (TUM), Munich, Germany","institution_ids":["https://openalex.org/I102322142","https://openalex.org/I40036882","https://openalex.org/I62916508"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5089912529","https://openalex.org/A5090706824"],"corresponding_institution_ids":["https://openalex.org/I102322142","https://openalex.org/I40036882","https://openalex.org/I4210137766","https://openalex.org/I62916508"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.9063,"has_fulltext":true,"cited_by_count":53,"citation_normalized_percentile":{"value":0.72800438,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"34","issue":"13","first_page":"i304","last_page":"i312"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.38269999623298645,"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":0.38269999623298645,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.1404999941587448,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.10090000182390213,"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/computer-science","display_name":"Computer science","score":0.796419620513916},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6635467410087585},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5768953561782837},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.51567542552948},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.422096312046051},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.42134904861450195},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37808117270469666},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3431149125099182},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.23394042253494263},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1536405086517334},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09726008772850037},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09186610579490662}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.796419620513916},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6635467410087585},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5768953561782837},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.51567542552948},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.422096312046051},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.42134904861450195},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37808117270469666},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3431149125099182},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.23394042253494263},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1536405086517334},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09726008772850037},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09186610579490662}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":7,"locations":[{"id":"doi:10.1093/bioinformatics/bty262","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty262","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/13/i304/25098619/bty262.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:29950013","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29950013","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:alma.01RUT_INST:11664942170004646","is_oa":false,"landing_page_url":"https://scholarship.libraries.rutgers.edu/esploro/outputs/journalArticle/HFSP-high-speed-homology-driven-function-annotation/991031665396704646","pdf_url":null,"source":{"id":"https://openalex.org/S4210197018","display_name":"View","issn_l":"2688-268X","issn":["2688-268X","2688-3988"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"pmh:oai:escidoc.org:escidoc:2627883","is_oa":false,"landing_page_url":"http://hdl.handle.net/21.11116/0000-0001-DA6A-3","pdf_url":null,"source":{"id":"https://openalex.org/S7407052962","display_name":"Max Planck Digital Library","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":"info:eu-repo/semantics/conferenceObject"},{"id":"pmh:oai:europepmc.org:4991076","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6022561","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pure.mpg.de:item_2627883","is_oa":false,"landing_page_url":"https://hdl.handle.net/21.11116/0000-0001-DA6A-3","pdf_url":null,"source":{"id":"https://openalex.org/S4306400654","display_name":"MPG.PuRe (Max Planck Society)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I149899117","host_organization_name":"Max Planck Society","host_organization_lineage":["https://openalex.org/I149899117"],"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":"info:eu-repo/semantics/conferenceObject"},{"id":"pmh:oai:s-space.snu.ac.kr:10371/202577","is_oa":false,"landing_page_url":"https://hdl.handle.net/10371/202577","pdf_url":null,"source":{"id":"https://openalex.org/S4306401345","display_name":"Seoul National University Open Repository (Seoul National University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139264467","host_organization_name":"Seoul National University","host_organization_lineage":["https://openalex.org/I139264467"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article; Proceedings Paper"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty262","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty262","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/13/i304/25098619/bty262.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":[{"display_name":"Industry, innovation and infrastructure","score":0.4399999976158142,"id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G1401744765","display_name":null,"funder_award_id":"NIH U01 GM115486","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1516293512","display_name":null,"funder_award_id":"291763","funder_id":"https://openalex.org/F4320333065","funder_display_name":"Seventh Framework Programme"},{"id":"https://openalex.org/G2106931674","display_name":null,"funder_award_id":"U01 GM115486","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5961332907","display_name":null,"funder_award_id":"U01 GM115486","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6134287873","display_name":"CAREER:  Molecular functional diversity of microbes and microbiomes","funder_award_id":"1553289","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6671297155","display_name":null,"funder_award_id":"CAREER","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7874306525","display_name":null,"funder_award_id":"291763","funder_id":"https://openalex.org/F4320336290","funder_display_name":"Institute for Advanced Study, Technische Universit\u00e4t M\u00fcnchen"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306114","display_name":"U.S. Department of Agriculture","ror":"https://ror.org/01na82s61"},{"id":"https://openalex.org/F4320308316","display_name":"Institute for Advanced Study","ror":"https://ror.org/00f809463"},{"id":"https://openalex.org/F4320323383","display_name":"Technische Universit\u00e4t M\u00fcnchen","ror":"https://ror.org/02kkvpp62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332299","display_name":"National Institute of Food and Agriculture","ror":"https://ror.org/05qx3fv49"},{"id":"https://openalex.org/F4320333065","display_name":"Seventh Framework Programme","ror":null},{"id":"https://openalex.org/F4320336290","display_name":"Institute for Advanced Study, Technische Universit\u00e4t M\u00fcnchen","ror":"https://ror.org/05fj6by70"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2808291890.pdf","grobid_xml":"https://content.openalex.org/works/W2808291890.grobid-xml"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W1563919039","https://openalex.org/W1692744135","https://openalex.org/W1964421503","https://openalex.org/W1985818354","https://openalex.org/W2047544230","https://openalex.org/W2051210555","https://openalex.org/W2055043387","https://openalex.org/W2060797027","https://openalex.org/W2099254366","https://openalex.org/W2101220662","https://openalex.org/W2103017472","https://openalex.org/W2110115297","https://openalex.org/W2111973517","https://openalex.org/W2115595474","https://openalex.org/W2117486996","https://openalex.org/W2128162768","https://openalex.org/W2138184609","https://openalex.org/W2144510899","https://openalex.org/W2154139219","https://openalex.org/W2156125289","https://openalex.org/W2157585454","https://openalex.org/W2158714788","https://openalex.org/W2170747616","https://openalex.org/W2171074980","https://openalex.org/W2227395312","https://openalex.org/W2534303219","https://openalex.org/W2950954328","https://openalex.org/W2952668569","https://openalex.org/W4210702584","https://openalex.org/W4242729757","https://openalex.org/W4247950422"],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W2358755282","https://openalex.org/W2625833328","https://openalex.org/W1533177136","https://openalex.org/W2738157694","https://openalex.org/W2041545801"],"abstract_inverted_index":{"Motivation:":[0],"The":[1,50],"rapid":[2],"drop":[3],"in":[4,52,137],"sequencing":[5],"costs":[6],"has":[7,59],"produced":[8],"many":[9,24],"more":[10],"(predicted)":[11],"protein":[12],"sequences":[13],"than":[14,122],"can":[15,129],"feasibly":[16],"be":[17],"functionally":[18],"annotated":[19],"with":[20],"wet-lab":[21],"experiments.":[22],"Thus,":[23],"computational":[25,83],"methods":[26,36],"have":[27],"been":[28],"developed":[29],"for":[30,141,158],"this":[31],"purpose.":[32],"Most":[33],"of":[34,55,78,88,98,103,144],"these":[35],"employ":[37],"homology-based":[38],"inference,":[39],"approximated":[40],"via":[41],"sequence":[42,108],"alignments,":[43],"to":[44,94],"transfer":[45],"functional":[46,76,96,160],"annotations":[47],"between":[48],"proteins.":[49],"increase":[51,125],"the":[53,62,101],"number":[54],"available":[56,168],"sequences,":[57],"however,":[58],"drastically":[60],"increased":[61],"search":[63],"space,":[64],"thus":[65],"significantly":[66],"slowing":[67],"down":[68],"alignment":[69,91,105],"methods.":[70],"Results:":[71],"Here":[72],"we":[73],"describe":[74],"homology-derived":[75],"similarity":[77,97],"proteins":[79,99],"(HFSP),":[80],"a":[81,89,134,142],"novel":[82],"method":[84,114],"that":[85,112],"uses":[86],"results":[87],"high-speed":[90],"algorithm,":[92],"MMseqs2,":[93],"infer":[95],"on":[100],"basis":[102],"their":[104],"length":[106],"and":[107,119],"identity.":[109],"We":[110],"show":[111],"our":[113],"is":[115],"accurate":[116],"(85%":[117],"precision)":[118],"fast":[120],"(more":[121],"40-fold":[123],"speed":[124],"over":[126],"state-of-the-art).":[127],"HFSP":[128,153],"help":[130],"correct":[131],"at":[132,169],"least":[133],"16%":[135],"error":[136],"legacy":[138],"curations,":[139],"even":[140],"resource":[143,157],"as":[145,148,154],"high":[146],"quality":[147],"Swiss-Prot.":[149],"These":[150],"findings":[151],"suggest":[152],"an":[155],"ideal":[156],"large-scale":[159],"annotation":[161],"efforts.":[162],"Supplementary":[163,165],"information:":[164],"data":[166],"are":[167],"Bioinformatics":[170],"online.":[171]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":13},{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":6}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}