{"id":"https://openalex.org/W2149451504","doi":"https://doi.org/10.1093/nar/gkt497","title":"SigniSite: Identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments","display_name":"SigniSite: Identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments","publication_year":2013,"publication_date":"2013-06-11","ids":{"openalex":"https://openalex.org/W2149451504","doi":"https://doi.org/10.1093/nar/gkt497","mag":"2149451504","pmid":"https://pubmed.ncbi.nlm.nih.gov/23761454"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkt497","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt497","pdf_url":"https://academic.oup.com/nar/article-pdf/41/W1/W286/16944381/gkt497.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/41/W1/W286/16944381/gkt497.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070090903","display_name":"Leon Eyrich Jessen","orcid":"https://orcid.org/0000-0003-2879-2559"},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]},{"id":"https://openalex.org/I228664971","display_name":"National University of General San Mart\u00edn","ror":"https://ror.org/00v29jp57","country_code":"AR","type":"education","lineage":["https://openalex.org/I228664971"]},{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["AR","DK"],"is_corresponding":false,"raw_author_name":"Leon Eyrich Jessen","raw_affiliation_strings":["Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark. jessen@cbs.dtu.dk","Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark. jessen@cbs.dtu.dk","institution_ids":["https://openalex.org/I96673099"]},{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I228664971","https://openalex.org/I124055696","https://openalex.org/I96673099"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004763412","display_name":"Ilka Hoof","orcid":"https://orcid.org/0000-0003-3827-7227"},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]},{"id":"https://openalex.org/I228664971","display_name":"National University of General San Mart\u00edn","ror":"https://ror.org/00v29jp57","country_code":"AR","type":"education","lineage":["https://openalex.org/I228664971"]},{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["AR","DK"],"is_corresponding":false,"raw_author_name":"Ilka Hoof","raw_affiliation_strings":["Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2 Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3 Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2 Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3 Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I96673099"]},{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I228664971","https://openalex.org/I124055696","https://openalex.org/I96673099"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071462078","display_name":"Ole Lund","orcid":"https://orcid.org/0000-0003-1108-0491"},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]},{"id":"https://openalex.org/I228664971","display_name":"National University of General San Mart\u00edn","ror":"https://ror.org/00v29jp57","country_code":"AR","type":"education","lineage":["https://openalex.org/I228664971"]},{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["AR","DK"],"is_corresponding":false,"raw_author_name":"Ole Lund","raw_affiliation_strings":["Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2 Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3 Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2 Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3 Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I96673099"]},{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I228664971","https://openalex.org/I124055696","https://openalex.org/I96673099"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076702280","display_name":"Morten Nielsen","orcid":"https://orcid.org/0000-0001-7885-4311"},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]},{"id":"https://openalex.org/I228664971","display_name":"National University of General San Mart\u00edn","ror":"https://ror.org/00v29jp57","country_code":"AR","type":"education","lineage":["https://openalex.org/I228664971"]},{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["AR","DK"],"is_corresponding":true,"raw_author_name":"Morten Nielsen","raw_affiliation_strings":["Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2 Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3 Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2 Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3 Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I96673099"]},{"raw_affiliation_string":"Department of Systems Biology, Center for Biological Sequence Analysis, Technical University of Denmark, Kemitorvet, Building 208, DK-2800 Lyngby, Denmark, 2Department of Molecular Biology and Biotech Research and Innovation Centre (BRIC), Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, DK-2200 Copenhagen, Denmark and 3Instituto de Investigaciones Biotecnologicas, Universidad Nacional de San Martin, San Martin, B 1650 HMP, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I228664971","https://openalex.org/I124055696","https://openalex.org/I96673099"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5076702280"],"corresponding_institution_ids":["https://openalex.org/I124055696","https://openalex.org/I228664971","https://openalex.org/I96673099"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.7375,"has_fulltext":true,"cited_by_count":22,"citation_normalized_percentile":{"value":0.72124944,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"41","issue":"W1","first_page":"W286","last_page":"W291"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9983000159263611,"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":0.9983000159263611,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9902999997138977,"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/T11482","display_name":"RNA modifications and cancer","score":0.9876000285148621,"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/biology","display_name":"Biology","score":0.9287657737731934},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.7347199320793152},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.638765275478363},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.595542848110199},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5701321959495544},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.49668341875076294},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.43848344683647156},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4356813430786133},{"id":"https://openalex.org/keywords/genotype-phenotype-distinction","display_name":"Genotype-phenotype distinction","score":0.4262318015098572},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.35890519618988037},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.28932780027389526}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.9287657737731934},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.7347199320793152},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.638765275478363},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.595542848110199},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5701321959495544},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.49668341875076294},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.43848344683647156},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4356813430786133},{"id":"https://openalex.org/C200844832","wikidata":"https://www.wikidata.org/wiki/Q5533517","display_name":"Genotype-phenotype distinction","level":4,"score":0.4262318015098572},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.35890519618988037},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.28932780027389526},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016333","descriptor_name":"HIV Protease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016333","descriptor_name":"HIV Protease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016333","descriptor_name":"HIV Protease","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017320","descriptor_name":"HIV Protease Inhibitors","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D017320","descriptor_name":"HIV Protease Inhibitors","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D017320","descriptor_name":"HIV Protease Inhibitors","qualifier_ui":"Q000494","qualifier_name":"pharmacology","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D024882","descriptor_name":"Drug Resistance, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D024882","descriptor_name":"Drug Resistance, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D024882","descriptor_name":"Drug Resistance, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056726","descriptor_name":"Genetic Association Studies","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056726","descriptor_name":"Genetic Association Studies","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056726","descriptor_name":"Genetic Association Studies","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/gkt497","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt497","pdf_url":"https://academic.oup.com/nar/article-pdf/41/W1/W286/16944381/gkt497.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:23761454","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23761454","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:europepmc.org:2686133","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3692133","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.atira.dk:openaire_cris_publications/59d00158-4663-4c96-a219-53bfd2e9e64d","is_oa":false,"landing_page_url":"https://researchprofiles.ku.dk/da/publications/59d00158-4663-4c96-a219-53bfd2e9e64d","pdf_url":null,"source":{"id":"https://openalex.org/S4306401983","display_name":"Research at the University of Copenhagen (University of Copenhagen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I124055696","host_organization_name":"University of Copenhagen","host_organization_lineage":["https://openalex.org/I124055696"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Jessen , L E , Hoof , I , Lund , O & Nielsen , M 2013 , ' SigniSite : identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments ' , Nucleic Acids Research , vol. 41 , no. W1 , pp. W286-W291 . https://doi.org/10.1093/nar/gkt497","raw_type":"article"},{"id":"pmh:oai:pure.atira.dk:publications/3c9a5888-1986-4cbf-9d06-32a1a6b33676","is_oa":true,"landing_page_url":"https://orbit.dtu.dk/en/publications/3c9a5888-1986-4cbf-9d06-32a1a6b33676","pdf_url":null,"source":{"id":"https://openalex.org/S4306400705","display_name":"Technical University of Denmark, DTU Orbit (Technical University of Denmark, DTU)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I96673099","host_organization_name":"Technical University of Denmark","host_organization_lineage":["https://openalex.org/I96673099"],"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":"Jessen , L I , Hoof , I , Lund , O & Nielsen , M 2013 , ' SigniSite: Identification of residue-level genotype-phenotype correlations in protein multiple sequence alignments ' , Nucleic Acids Research , vol. 41 , no. W1 , pp. 20W286-W291 . https://doi.org/10.1093/nar/gkt497","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1093/nar/gkt497","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt497","pdf_url":"https://academic.oup.com/nar/article-pdf/41/W1/W286/16944381/gkt497.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.8299999833106995,"display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G2579040122","display_name":null,"funder_award_id":"EU FP7","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G2973790809","display_name":null,"funder_award_id":"FP7/2007-2013","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3829048491","display_name":null,"funder_award_id":"FP7/2007-2013","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G4095753390","display_name":null,"funder_award_id":"09-067103/DSF","funder_id":"https://openalex.org/F4320323152","funder_display_name":"Center for Genomic Epidemiology"},{"id":"https://openalex.org/G5412517089","display_name":null,"funder_award_id":"HHSN272201200010C","funder_id":"https://openalex.org/F4320332505","funder_display_name":"U.S. Public Health Service"},{"id":"https://openalex.org/G5593277320","display_name":null,"funder_award_id":"2007-2013","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5702163051","display_name":null,"funder_award_id":"FP7/2007","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G6081006568","display_name":"High-Density Peptide MicroArrays and Parallel On-line Detection of Peptide-Ligand Interactions","funder_award_id":"222773","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G6341472223","display_name":null,"funder_award_id":"09-067103/DSF","funder_id":"https://openalex.org/F4320309756","funder_display_name":"Strategiske Forskningsr\u00e5d"},{"id":"https://openalex.org/G6845131987","display_name":null,"funder_award_id":"HHSN272201200010C","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8433657993","display_name":null,"funder_award_id":"09-067103","funder_id":"https://openalex.org/F4320309756","funder_display_name":"Strategiske Forskningsr\u00e5d"}],"funders":[{"id":"https://openalex.org/F4320309756","display_name":"Strategiske Forskningsr\u00e5d","ror":"https://ror.org/03ge1nb22"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320323152","display_name":"Center for Genomic Epidemiology","ror":"https://ror.org/04qtj9h94"},{"id":"https://openalex.org/F4320323153","display_name":"Danmarks Tekniske Universitet","ror":"https://ror.org/04qtj9h94"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332505","display_name":"U.S. Public Health Service","ror":"https://ror.org/05xf94514"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2149451504.pdf","grobid_xml":"https://content.openalex.org/works/W2149451504.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W33778683","https://openalex.org/W2025630031","https://openalex.org/W2033561922","https://openalex.org/W2040539483","https://openalex.org/W2076455712","https://openalex.org/W2080664482","https://openalex.org/W2085099772","https://openalex.org/W2089150331","https://openalex.org/W2103660241","https://openalex.org/W2104601544","https://openalex.org/W2121714338","https://openalex.org/W2127774996","https://openalex.org/W2128478556","https://openalex.org/W2134829539","https://openalex.org/W2137991504","https://openalex.org/W2139041092","https://openalex.org/W2141407136","https://openalex.org/W2150215096","https://openalex.org/W2164841125","https://openalex.org/W2169790816","https://openalex.org/W2560209713","https://openalex.org/W4236479494","https://openalex.org/W4239059109","https://openalex.org/W4297914773","https://openalex.org/W6601417766","https://openalex.org/W6678323245","https://openalex.org/W6680991062"],"related_works":["https://openalex.org/W1535741351","https://openalex.org/W3032391085","https://openalex.org/W3212418185","https://openalex.org/W2076386802","https://openalex.org/W2066479759","https://openalex.org/W3003578468","https://openalex.org/W4319333460","https://openalex.org/W2071716768","https://openalex.org/W2092913562","https://openalex.org/W2914177579"],"abstract_inverted_index":{"Identifying":[0],"which":[1,72],"mutation(s)":[2],"within":[3],"a":[4,51,65,88,102,114,126,149],"given":[5,66],"genotype":[6],"is":[7,13,50,170],"responsible":[8],"for":[9,28,117],"an":[10,25,60],"observable":[11],"phenotype":[12,96],"important":[14],"in":[15],"many":[16],"aspects":[17],"of":[18,44,53,94,98,120,128,152],"molecular":[19],"biology.":[20],"Here,":[21],"we":[22],"present":[23],"SigniSite,":[24],"online":[26],"application":[27],"subgroup-free":[29],"residue-level":[30],"genotype-phenotype":[31,133],"correlation.":[32],"In":[33],"contrast":[34],"to":[35,166],"similar":[36],"methods,":[37],"SigniSite":[38,68,86,109,163,169],"does":[39],"not":[40],"require":[41],"any":[42],"pre-definition":[43],"subgroups":[45],"or":[46,106],"binary":[47],"classification.":[48],"Input":[49],"set":[52,82,127,151],"protein":[54,153],"sequences":[55],"where":[56],"each":[57,99],"sequence":[58,89],"has":[59],"associated":[61,78],"real":[62],"number,":[63],"quantifying":[64],"phenotype.":[67,83],"will":[69],"then":[70],"identify":[71],"amino":[73],"acid":[74],"residues":[75],"are":[76],"significantly":[77],"with":[79,155],"the":[80,92,95,118,141],"data":[81,134,150,161],"As":[84],"output,":[85],"displays":[87],"logo,":[90],"depicting":[91],"strength":[93],"association":[97],"residue":[100],"and":[101,135,148],"heat-map":[103],"identifying":[104],"'hot'":[105],"'cold'":[107],"regions.":[108],"was":[110,164],"benchmarked":[111],"against":[112],"SPEER,":[113],"state-of-the-art":[115],"method":[116],"prediction":[119],"specificity":[121],"determining":[122],"positions":[123],"(SDP)":[124],"using":[125],"human":[129],"immunodeficiency":[130],"virus":[131],"protease-inhibitor":[132],"corresponding":[136],"resistance":[137],"mutation":[138],"scores":[139],"from":[140],"Stanford":[142],"University":[143],"HIV":[144],"Drug":[145],"Resistance":[146],"Database,":[147],"families":[154],"experimentally":[156],"annotated":[157],"SDPs.":[158],"For":[159],"both":[160],"sets,":[162],"found":[165],"outperform":[167],"SPEER.":[168],"available":[171],"at:":[172],"http://www.cbs.dtu.dk/services/SigniSite/.":[173]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}