{"id":"https://openalex.org/W2177760071","doi":"https://doi.org/10.1186/1748-7188-9-8","title":"Protein (multi-)location prediction: using location inter-dependencies in a probabilistic framework","display_name":"Protein (multi-)location prediction: using location inter-dependencies in a probabilistic framework","publication_year":2014,"publication_date":"2014-03-19","ids":{"openalex":"https://openalex.org/W2177760071","doi":"https://doi.org/10.1186/1748-7188-9-8","mag":"2177760071","pmid":"https://pubmed.ncbi.nlm.nih.gov/24646119"},"language":"en","primary_location":{"id":"doi:10.1186/1748-7188-9-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1748-7188-9-8","pdf_url":"https://link.springer.com/content/pdf/10.1186/1748-7188-9-8.pdf","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms for Molecular Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/1748-7188-9-8.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006761975","display_name":"Ramanuja Simha","orcid":"https://orcid.org/0000-0002-8032-0690"},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ramanuja Simha","raw_affiliation_strings":["Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA","institution_ids":["https://openalex.org/I86501945"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5043310715","display_name":"Hagit Shatkay","orcid":"https://orcid.org/0000-0001-6953-3970"},"institutions":[{"id":"https://openalex.org/I86501945","display_name":"University of Delaware","ror":"https://ror.org/01sbq1a82","country_code":"US","type":"education","lineage":["https://openalex.org/I86501945"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hagit Shatkay","raw_affiliation_strings":["Department of Computer and Information Sciences, University of Delaware, Newark DE, USA. shatkay@udel.edu","Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer and Information Sciences, University of Delaware, Newark DE, USA. shatkay@udel.edu","institution_ids":["https://openalex.org/I86501945"]},{"raw_affiliation_string":"Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA","institution_ids":["https://openalex.org/I86501945"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5043310715"],"corresponding_institution_ids":["https://openalex.org/I86501945"],"apc_list":{"value":1490,"currency":"GBP","value_usd":1827},"apc_paid":{"value":1490,"currency":"GBP","value_usd":1827},"fwci":0.854,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.73762641,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"9","issue":"1","first_page":"8","last_page":"8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9142000079154968,"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":0.9142000079154968,"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":0.017899999395012856,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.017799999564886093,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7818271517753601},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.6288453340530396},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5896549820899963},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.5697811245918274},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.49999403953552246},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4835776686668396},{"id":"https://openalex.org/keywords/bayesian-network","display_name":"Bayesian network","score":0.4675043523311615},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.41298115253448486}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7818271517753601},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.6288453340530396},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5896549820899963},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.5697811245918274},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.49999403953552246},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4835776686668396},{"id":"https://openalex.org/C33724603","wikidata":"https://www.wikidata.org/wiki/Q812540","display_name":"Bayesian network","level":2,"score":0.4675043523311615},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.41298115253448486}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1186/1748-7188-9-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1748-7188-9-8","pdf_url":"https://link.springer.com/content/pdf/10.1186/1748-7188-9-8.pdf","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms for Molecular Biology","raw_type":"journal-article"},{"id":"pmid:24646119","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24646119","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":"Algorithms for molecular biology : AMB","raw_type":null},{"id":"pmh:oai:europepmc.org:2990507","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3994749","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1748-7188-9-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1748-7188-9-8","pdf_url":"https://link.springer.com/content/pdf/10.1186/1748-7188-9-8.pdf","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms for Molecular Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2177760071.pdf","grobid_xml":"https://content.openalex.org/works/W2177760071.grobid-xml"},"referenced_works_count":69,"referenced_works":["https://openalex.org/W55768394","https://openalex.org/W1532325895","https://openalex.org/W1560724230","https://openalex.org/W1585743408","https://openalex.org/W1678889691","https://openalex.org/W1755360231","https://openalex.org/W1940920025","https://openalex.org/W1969080446","https://openalex.org/W1979975413","https://openalex.org/W1982228765","https://openalex.org/W1982289655","https://openalex.org/W2002830978","https://openalex.org/W2003032764","https://openalex.org/W2010211703","https://openalex.org/W2012686113","https://openalex.org/W2017277794","https://openalex.org/W2029119755","https://openalex.org/W2031321072","https://openalex.org/W2034515571","https://openalex.org/W2035055162","https://openalex.org/W2036154117","https://openalex.org/W2036248751","https://openalex.org/W2047187013","https://openalex.org/W2062403173","https://openalex.org/W2069389043","https://openalex.org/W2071055011","https://openalex.org/W2098712526","https://openalex.org/W2099111195","https://openalex.org/W2101234009","https://openalex.org/W2103934447","https://openalex.org/W2104087716","https://openalex.org/W2108206279","https://openalex.org/W2114494712","https://openalex.org/W2117483382","https://openalex.org/W2122410182","https://openalex.org/W2123552972","https://openalex.org/W2124306486","https://openalex.org/W2129410760","https://openalex.org/W2132820240","https://openalex.org/W2137587467","https://openalex.org/W2140190241","https://openalex.org/W2142930789","https://openalex.org/W2145373938","https://openalex.org/W2145957695","https://openalex.org/W2146241755","https://openalex.org/W2146620899","https://openalex.org/W2149198894","https://openalex.org/W2149704342","https://openalex.org/W2152458080","https://openalex.org/W2154664365","https://openalex.org/W2156355974","https://openalex.org/W2158173168","https://openalex.org/W2159148537","https://openalex.org/W2160941422","https://openalex.org/W2161024233","https://openalex.org/W2161062388","https://openalex.org/W2162797435","https://openalex.org/W2164620224","https://openalex.org/W2167539811","https://openalex.org/W2169432731","https://openalex.org/W2170112109","https://openalex.org/W2478708596","https://openalex.org/W2611370172","https://openalex.org/W2795859624","https://openalex.org/W3150555252","https://openalex.org/W3182730020","https://openalex.org/W4205565317","https://openalex.org/W4213009331","https://openalex.org/W4240237073"],"related_works":["https://openalex.org/W2494523064","https://openalex.org/W2943623134","https://openalex.org/W2215759665","https://openalex.org/W2960358116","https://openalex.org/W2030292806","https://openalex.org/W3041172967","https://openalex.org/W2749065928","https://openalex.org/W2147155098","https://openalex.org/W4287727129","https://openalex.org/W1734881440"],"abstract_inverted_index":{"MOTIVATION:":[0],"Knowing":[1],"the":[2,8,48,116,119,147,175,189,219,265],"location":[3,124],"of":[4,79,150,160,177,204,243],"a":[5,24,55,70,130,134,158,171,202,252],"protein":[6,212],"within":[7],"cell":[9],"is":[10,107,155,167,249],"important":[11],"for":[12,40,86],"understanding":[13],"its":[14],"function,":[15],"role":[16],"in":[17,32,264],"biological":[18],"processes,":[19],"and":[20,95,118,133,188,206],"potential":[21],"use":[22,239],"as":[23,93],"drug":[25],"target.":[26],"Much":[27],"progress":[28],"has":[29,60],"been":[30,61],"made":[31],"developing":[33],"computational":[34],"methods":[35,44],"that":[36,51,63,108,140,236],"predict":[37,76,170],"single":[38,56,172],"locations":[39,78,92,113,145],"proteins.":[41,152],"Most":[42],"such":[43],"are":[45,228],"based":[46,156],"on":[47,157,201,246],"over-simplifying":[49],"assumption":[50],"proteins":[52,64,208,248],"localize":[53,65],"to":[54,66,75,99,169,251,261],"location.":[57,173],"However,":[58],"it":[59],"shown":[62],"multiple":[67,77,195],"locations.":[68,104,196],"While":[69],"few":[71],"recent":[72],"systems":[73],"attempt":[74,98],"proteins,":[80],"their":[81],"performance":[82,242],"leaves":[83],"much":[84],"room":[85],"improvement.":[87],"Moreover,":[88],"they":[89],"typically":[90],"treat":[91],"independent":[94],"do":[96,237],"not":[97,238],"utilize":[100],"possible":[101],"inter-dependencies":[102,111,143,185],"among":[103,112,144,186],"Our":[105,153,222],"hypothesis":[106],"directly":[109,141],"incorporating":[110,226],"into":[114,146,183],"both":[115],"classifier-learning":[117],"prediction":[120,125,190],"process":[121,149,191],"can":[122],"improve":[123],"performance.":[126],"RESULTS:":[127],"We":[128,197],"present":[129,263],"new":[131],"method":[132,154],"preliminary":[135],"system":[136,200,245,255],"we":[137],"have":[138],"developed":[139],"incorporates":[142],"location-prediction":[148],"multiply-localized":[151],"collection":[159],"Bayesian":[161,179],"network":[162,180],"classifiers,":[163],"where":[164],"each":[165,178],"classifier":[166,181],"used":[168],"Learning":[174],"structure":[176],"takes":[182],"account":[184],"locations,":[187],"uses":[192],"estimates":[193],"involving":[194],"evaluate":[198],"our":[199,244],"dataset":[203,214],"single-":[205],"multi-localized":[207,247],"(the":[209],"most":[210],"comprehensive":[211],"multi-localization":[213],"currently":[215],"available,":[216],"derived":[217],"from":[218],"DBMLoc":[220],"dataset).":[221],"results,":[223],"obtained":[224,233],"by":[225,234],"inter-dependencies,":[227],"significantly":[229],"higher":[230],"than":[231],"those":[232],"classifiers":[235],"inter-dependencies.":[240],"The":[241],"comparable":[250],"top":[253],"performing":[254],"(YLoc+),":[256],"without":[257],"being":[258],"restricted":[259],"only":[260],"location-combinations":[262],"training":[266],"set.":[267]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
