{"id":"https://openalex.org/W1988536808","doi":"https://doi.org/10.1145/2147805.2147855","title":"Kernel methods for Calmodulin binding and binding site prediction","display_name":"Kernel methods for Calmodulin binding and binding site prediction","publication_year":2011,"publication_date":"2011-08-01","ids":{"openalex":"https://openalex.org/W1988536808","doi":"https://doi.org/10.1145/2147805.2147855","mag":"1988536808"},"language":"en","primary_location":{"id":"doi:10.1145/2147805.2147855","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2147805.2147855","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine","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/A5103108730","display_name":"Michael Hamilton","orcid":"https://orcid.org/0000-0002-5519-4821"},"institutions":[{"id":"https://openalex.org/I92446798","display_name":"Colorado State University","ror":"https://ror.org/03k1gpj17","country_code":"US","type":"education","lineage":["https://openalex.org/I92446798"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Hamilton","raw_affiliation_strings":["Colorado State University, Fort Collins, CO","Colorado State University, Fort Collins, CO;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Colorado State University, Fort Collins, CO","institution_ids":["https://openalex.org/I92446798"]},{"raw_affiliation_string":"Colorado State University, Fort Collins, CO;","institution_ids":["https://openalex.org/I92446798"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058834831","display_name":"Anireddy S. N. Reddy","orcid":"https://orcid.org/0000-0002-4038-4091"},"institutions":[{"id":"https://openalex.org/I92446798","display_name":"Colorado State University","ror":"https://ror.org/03k1gpj17","country_code":"US","type":"education","lineage":["https://openalex.org/I92446798"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. S. N. Reddy","raw_affiliation_strings":["Colorado State University, Fort Collins, CO","Colorado State University, Fort Collins, CO;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Colorado State University, Fort Collins, CO","institution_ids":["https://openalex.org/I92446798"]},{"raw_affiliation_string":"Colorado State University, Fort Collins, CO;","institution_ids":["https://openalex.org/I92446798"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005013902","display_name":"Asa Ben\u2010Hur","orcid":"https://orcid.org/0000-0001-8269-6942"},"institutions":[{"id":"https://openalex.org/I92446798","display_name":"Colorado State University","ror":"https://ror.org/03k1gpj17","country_code":"US","type":"education","lineage":["https://openalex.org/I92446798"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Asa Ben-Hur","raw_affiliation_strings":["Colorado State University, Fort Collins, CO","Colorado State University, Fort Collins, CO;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Colorado State University, Fort Collins, CO","institution_ids":["https://openalex.org/I92446798"]},{"raw_affiliation_string":"Colorado State University, Fort Collins, CO;","institution_ids":["https://openalex.org/I92446798"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.1331,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.51846794,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"381","last_page":"386"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9937000274658203,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9937000274658203,"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":0.9843000173568726,"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/T11237","display_name":"Plant Gene Expression Analysis","score":0.9771999716758728,"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/calmodulin","display_name":"Calmodulin","score":0.8811132907867432},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.6084593534469604},{"id":"https://openalex.org/keywords/binding-site","display_name":"Binding site","score":0.5884037017822266},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4966591000556946},{"id":"https://openalex.org/keywords/calcium-binding-protein","display_name":"Calcium-binding protein","score":0.4691444933414459},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.46636494994163513},{"id":"https://openalex.org/keywords/plasma-protein-binding","display_name":"Plasma protein binding","score":0.4575807452201843},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.4262588620185852},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.354272723197937},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3480736017227173},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.31851330399513245},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3132703900337219},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2570313811302185},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.25614088773727417},{"id":"https://openalex.org/keywords/calcium","display_name":"Calcium","score":0.23559308052062988},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.16875898838043213}],"concepts":[{"id":"https://openalex.org/C29688787","wikidata":"https://www.wikidata.org/wiki/Q409145","display_name":"Calmodulin","level":3,"score":0.8811132907867432},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.6084593534469604},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.5884037017822266},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4966591000556946},{"id":"https://openalex.org/C122229402","wikidata":"https://www.wikidata.org/wiki/Q5018802","display_name":"Calcium-binding protein","level":3,"score":0.4691444933414459},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.46636494994163513},{"id":"https://openalex.org/C51639874","wikidata":"https://www.wikidata.org/wiki/Q167149","display_name":"Plasma protein binding","level":2,"score":0.4575807452201843},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.4262588620185852},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.354272723197937},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3480736017227173},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.31851330399513245},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3132703900337219},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2570313811302185},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.25614088773727417},{"id":"https://openalex.org/C519063684","wikidata":"https://www.wikidata.org/wiki/Q706","display_name":"Calcium","level":2,"score":0.23559308052062988},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.16875898838043213},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2147805.2147855","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2147805.2147855","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Responsible consumption and production","score":0.4300000071525574,"id":"https://metadata.un.org/sdg/12"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":23,"referenced_works":["https://openalex.org/W1483118642","https://openalex.org/W1529355025","https://openalex.org/W1767701883","https://openalex.org/W1968901680","https://openalex.org/W1984765576","https://openalex.org/W2008842646","https://openalex.org/W2013207687","https://openalex.org/W2014731953","https://openalex.org/W2020816856","https://openalex.org/W2076048958","https://openalex.org/W2097936772","https://openalex.org/W2099862356","https://openalex.org/W2103485392","https://openalex.org/W2103729016","https://openalex.org/W2119821739","https://openalex.org/W2120385383","https://openalex.org/W2126320503","https://openalex.org/W2137321680","https://openalex.org/W2142396509","https://openalex.org/W2143881057","https://openalex.org/W2150686509","https://openalex.org/W2158714788","https://openalex.org/W2315962322"],"related_works":["https://openalex.org/W2009015762","https://openalex.org/W1969364969","https://openalex.org/W192779242","https://openalex.org/W2021432785","https://openalex.org/W2416083076","https://openalex.org/W2111813889","https://openalex.org/W83773294","https://openalex.org/W2011281950","https://openalex.org/W1998986511","https://openalex.org/W2064473372"],"abstract_inverted_index":{"Calmodulin":[0,56],"(CaM)":[1],"is":[2,7],"a":[3,10,42,47,69,111],"calcium-binding":[4],"protein":[5],"that":[6],"involved":[8],"in":[9,108],"variety":[11,70],"of":[12,37,49,71,84,103,114,135],"cellular":[13],"processes,":[14],"interacting":[15],"with":[16,132],"many":[17,20],"proteins.":[18,123],"Since":[19],"CaM":[21,38,50,65,105,121,137],"interactions":[22],"are":[23,26],"calcium-dependent,":[24],"they":[25],"difficult":[27],"to":[28,63,100],"detect":[29,64],"using":[30,68],"high-throughput":[31],"methods":[32],"like":[33],"yeast-two-hybrid.":[34],"Furthermore,":[35],"detection":[36],"binding":[39,51,66,88,106,122],"sites":[40,52,67],"requires":[41],"significant":[43],"experimental":[44],"effort.":[45],"Using":[46],"collection":[48],"extracted":[53],"from":[54],"the":[55,81,92,101,133],"Target":[57],"Database":[58],"we":[59,116],"trained":[60],"SVM-based":[61],"classifiers":[62,99],"sequence":[72],"features;":[73],"our":[74,98],"best":[75],"classifier":[76],"achieved":[77],"an":[78],"area":[79],"under":[80],"ROC":[82],"curve":[83],"0.89":[85],"for":[86],"detecting":[87,104],"site":[89],"locations":[90],"at":[91,110],"amino":[93],"acid":[94],"level.":[95],"We":[96],"apply":[97],"problem":[102],"proteins":[107,125],"Arabidopsis;":[109],"false-positive":[112],"level":[113],"0.05":[115],"detected":[117],"638":[118],"novel":[119],"putative":[120],"These":[124],"share":[126],"overrepresented":[127],"Gene":[128],"Ontology":[129],"terms":[130],"associated":[131],"functions":[134],"known":[136],"binders.":[138]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
