{"id":"https://openalex.org/W1853400460","doi":"https://doi.org/10.1109/ijcnn.2003.1224064","title":"Spectral clustering of protein sequences","display_name":"Spectral clustering of protein sequences","publication_year":2004,"publication_date":"2004-06-22","ids":{"openalex":"https://openalex.org/W1853400460","doi":"https://doi.org/10.1109/ijcnn.2003.1224064","mag":"1853400460"},"language":"en","primary_location":{"id":"doi:10.1109/ijcnn.2003.1224064","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ijcnn.2003.1224064","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the International Joint Conference on Neural Networks, 2003.","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5030607460","display_name":"Alberto Paccanaro","orcid":"https://orcid.org/0000-0001-8059-1346"},"institutions":[{"id":"https://openalex.org/I166337079","display_name":"Queen Mary University of London","ror":"https://ror.org/026zzn846","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I166337079"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"A. Paccanaro","raw_affiliation_strings":["Dept. of Med. Microbiol., Queen Mary Univ. of London, UK"],"affiliations":[{"raw_affiliation_string":"Dept. of Med. Microbiol., Queen Mary Univ. of London, UK","institution_ids":["https://openalex.org/I166337079"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109170410","display_name":"Chakra Chennubhotla","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"C. Chennubhotla","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021342473","display_name":"James A Casbon","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"J.A. Casbon","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5068307947","display_name":"Mansoor Saqi","orcid":"https://orcid.org/0000-0003-1222-475X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"M.A.S. Saqi","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5030607460"],"corresponding_institution_ids":["https://openalex.org/I166337079"],"apc_list":null,"apc_paid":null,"fwci":0.3618,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.56770784,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"4","issue":null,"first_page":"3083","last_page":"3088"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9994000196456909,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9994000196456909,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9993000030517578,"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":0.9990000128746033,"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/cluster-analysis","display_name":"Cluster analysis","score":0.6095770597457886},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5742945075035095},{"id":"https://openalex.org/keywords/spectral-clustering","display_name":"Spectral clustering","score":0.4411850869655609},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4216920733451843},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3357527256011963}],"concepts":[{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6095770597457886},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5742945075035095},{"id":"https://openalex.org/C105611402","wikidata":"https://www.wikidata.org/wiki/Q2976589","display_name":"Spectral clustering","level":3,"score":0.4411850869655609},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4216920733451843},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3357527256011963}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/ijcnn.2003.1224064","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ijcnn.2003.1224064","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the International Joint Conference on Neural Networks, 2003.","raw_type":"proceedings-article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.123.6171","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.123.6171","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/cgi/screenpdf/34/5/1571.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":36,"referenced_works":["https://openalex.org/W55994727","https://openalex.org/W200434350","https://openalex.org/W1538070674","https://openalex.org/W1544324307","https://openalex.org/W1997268601","https://openalex.org/W2039846678","https://openalex.org/W2055043387","https://openalex.org/W2065283382","https://openalex.org/W2085029305","https://openalex.org/W2085277871","https://openalex.org/W2101220662","https://openalex.org/W2107302432","https://openalex.org/W2108758729","https://openalex.org/W2118619377","https://openalex.org/W2121297744","https://openalex.org/W2121564430","https://openalex.org/W2121947440","https://openalex.org/W2124166542","https://openalex.org/W2127086485","https://openalex.org/W2133828198","https://openalex.org/W2134175065","https://openalex.org/W2137488129","https://openalex.org/W2145358391","https://openalex.org/W2158714788","https://openalex.org/W2160167256","https://openalex.org/W2165874743","https://openalex.org/W2468220216","https://openalex.org/W2612166593","https://openalex.org/W2740373864","https://openalex.org/W6608197349","https://openalex.org/W6632314457","https://openalex.org/W6677945368","https://openalex.org/W6678902509","https://openalex.org/W6680159909","https://openalex.org/W6684578312","https://openalex.org/W6750968397"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2033914206","https://openalex.org/W1482912984","https://openalex.org/W2042327336"],"abstract_inverted_index":{"An":[0],"important":[1],"problem":[2],"in":[3,135],"genomics":[4],"is":[5,14,128],"automatically":[6],"clustering":[7,19,64],"homologous":[8],"proteins":[9,20,127],"when":[10],"only":[11],"sequence":[12,33],"information":[13],"available.":[15],"Most":[16],"methods":[17,45,92],"for":[18,107,122],"are":[21,24,139],"local,":[22],"and":[23,65,85,142,166,190],"based":[25,61],"on":[26,62,93],"simply":[27],"thresholding":[28],"a":[29,58,74,104,123,161],"measure":[30,162],"related":[31],"to":[32,130,188],"distance.":[34],"We":[35,55,80,111],"first":[36],"show":[37],"how":[38],"locality":[39],"limits":[40],"the":[41,48,97,115,131,143,153,156],"performance":[42,88],"of":[43,50,69,96,101,117,126,133,155],"such":[44],"by":[46,160],"analysing":[47],"distribution":[49],"distances":[51],"between":[52],"protein":[53,108],"sequences.":[54],"then":[56],"present":[57],"global":[59,195],"method":[60,84,144],"spectral":[63],"provide":[66],"theoretical":[67],"justification":[68],"why":[70],"it":[71],"will":[72],"have":[73],"remarkable":[75],"improvement":[76],"over":[77,177,182,193],"local":[78,91],"methods.":[79],"extensively":[81],"tested":[82],"our":[83,151],"compared":[86],"its":[87],"with":[89],"other":[90],"several":[94],"subsets":[95],"SCOP":[98],"(Structural":[99],"Classification":[100],"Proteins)":[102],"database,":[103],"gold":[105],"standard":[106],"structure":[109],"classification.":[110],"consistently":[112,169],"observed":[113],"that,":[114],"number":[116,132],"clusters":[118,157],"that":[119,136,163],"we":[120],"obtain":[121],"given":[124],"set":[125],"close":[129],"superfamilies":[134],"set;":[137],"there":[138],"fewer":[140],"singletons;":[141],"correctly":[145],"groups":[146],"most":[147],"remote":[148],"homologs.":[149],"In":[150],"experiments,":[152],"quality":[154],"as":[158],"quantified":[159],"combines":[164],"sensitivity":[165],"specificity":[167],"was":[168],"better":[170],"[on":[171],"average,":[172],"improvements":[173],"were":[174],"84":[175],"%":[176,181,192],"hierarchical":[178],"clustering,":[179],"34":[180],"Connected":[183],"Component":[184],"Analysis":[185],"(CCA)":[186],"(similar":[187],"GeneRAGE)":[189],"72":[191],"another":[194],"method,":[196],"TribeMCL].":[197]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
