{"id":"https://openalex.org/W1277945432","doi":"https://doi.org/10.1109/tcbb.2015.2474407","title":"Mem-mEN: Predicting Multi-Functional Types of Membrane Proteins by Interpretable Elastic Nets","display_name":"Mem-mEN: Predicting Multi-Functional Types of Membrane Proteins by Interpretable Elastic Nets","publication_year":2015,"publication_date":"2015-08-28","ids":{"openalex":"https://openalex.org/W1277945432","doi":"https://doi.org/10.1109/tcbb.2015.2474407","mag":"1277945432","pmid":"https://pubmed.ncbi.nlm.nih.gov/26336143"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2015.2474407","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2474407","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://ira.lib.polyu.edu.hk/bitstream/10397/107267/1/Mak_Mem-Men_Predicting_Multi-Functional.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065053020","display_name":"Shibiao Wan","orcid":"https://orcid.org/0000-0003-0661-2684"},"institutions":[{"id":"https://openalex.org/I14243506","display_name":"Hong Kong Polytechnic University","ror":"https://ror.org/0030zas98","country_code":"HK","type":"education","lineage":["https://openalex.org/I14243506"]}],"countries":["HK"],"is_corresponding":true,"raw_author_name":"Shibiao Wan","raw_affiliation_strings":["Department of Electronic and Information Engineering, The Hong Kong Polytechnic University, Hong Kong","Department of Electronic and Information Engineering The Hong Kong Polytechnic University, Hong Kong"],"affiliations":[{"raw_affiliation_string":"Department of Electronic and Information Engineering, The Hong Kong Polytechnic University, Hong Kong","institution_ids":["https://openalex.org/I14243506"]},{"raw_affiliation_string":"Department of Electronic and Information Engineering The Hong Kong Polytechnic University, Hong Kong","institution_ids":["https://openalex.org/I14243506"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068768998","display_name":"Man\u2010Wai Mak","orcid":"https://orcid.org/0000-0001-8854-3760"},"institutions":[{"id":"https://openalex.org/I14243506","display_name":"Hong Kong Polytechnic University","ror":"https://ror.org/0030zas98","country_code":"HK","type":"education","lineage":["https://openalex.org/I14243506"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Man-Wai Mak","raw_affiliation_strings":["Department of Electronic and Information Engineering, The Hong Kong Polytechnic University, Hong Kong","Department of Electronic and Information Engineering The Hong Kong Polytechnic University, Hong Kong"],"affiliations":[{"raw_affiliation_string":"Department of Electronic and Information Engineering, The Hong Kong Polytechnic University, Hong Kong","institution_ids":["https://openalex.org/I14243506"]},{"raw_affiliation_string":"Department of Electronic and Information Engineering The Hong Kong Polytechnic University, Hong Kong","institution_ids":["https://openalex.org/I14243506"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072714962","display_name":"Sun\u2010Yuan Kung","orcid":"https://orcid.org/0000-0002-7314-0720"},"institutions":[{"id":"https://openalex.org/I20089843","display_name":"Princeton University","ror":"https://ror.org/00hx57361","country_code":"US","type":"education","lineage":["https://openalex.org/I20089843"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sun-Yuan Kung","raw_affiliation_strings":["Department of Electrical Engineering, Princeton University, Princeton, NJ","[Dept. of Electrical Engineering, Princeton University, Princeton, NJ]"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering, Princeton University, Princeton, NJ","institution_ids":["https://openalex.org/I20089843"]},{"raw_affiliation_string":"[Dept. of Electrical Engineering, Princeton University, Princeton, NJ]","institution_ids":["https://openalex.org/I20089843"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5065053020"],"corresponding_institution_ids":["https://openalex.org/I14243506"],"apc_list":null,"apc_paid":null,"fwci":1.6569,"has_fulltext":true,"cited_by_count":26,"citation_normalized_percentile":{"value":0.83124759,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"13","issue":"4","first_page":"706","last_page":"718"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998999834060669,"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":0.9998999834060669,"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":0.994700014591217,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9886000156402588,"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/computational-biology","display_name":"Computational biology","score":0.45634564757347107},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3955741822719574},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3689764142036438},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3243946433067322},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2649366855621338}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45634564757347107},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3955741822719574},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3689764142036438},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3243946433067322},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2649366855621338}],"mesh":[{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","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":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1109/tcbb.2015.2474407","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2474407","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26336143","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26336143","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null},{"id":"pmh:oai:ira.lib.polyu.edu.hk:10397/107267","is_oa":true,"landing_page_url":"http://hdl.handle.net/10397/107267","pdf_url":"http://ira.lib.polyu.edu.hk/bitstream/10397/107267/1/Mak_Mem-Men_Predicting_Multi-Functional.pdf","source":{"id":"https://openalex.org/S4306400205","display_name":"PolyU Institutional Research Archive (Hong Kong Polytechnic University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I14243506","host_organization_name":"Hong Kong Polytechnic University","host_organization_lineage":["https://openalex.org/I14243506"],"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":"Journal/Magazine Article"},{"id":"pmh:oai:ira.lib.polyu.edu.hk:10397/62114","is_oa":false,"landing_page_url":"http://hdl.handle.net/10397/62114","pdf_url":null,"source":{"id":"https://openalex.org/S4306400205","display_name":"PolyU Institutional Research Archive (Hong Kong Polytechnic University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I14243506","host_organization_name":"Hong Kong Polytechnic University","host_organization_lineage":["https://openalex.org/I14243506"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal/Magazine Article"}],"best_oa_location":{"id":"pmh:oai:ira.lib.polyu.edu.hk:10397/107267","is_oa":true,"landing_page_url":"http://hdl.handle.net/10397/107267","pdf_url":"http://ira.lib.polyu.edu.hk/bitstream/10397/107267/1/Mak_Mem-Men_Predicting_Multi-Functional.pdf","source":{"id":"https://openalex.org/S4306400205","display_name":"PolyU Institutional Research Archive (Hong Kong Polytechnic University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I14243506","host_organization_name":"Hong Kong Polytechnic University","host_organization_lineage":["https://openalex.org/I14243506"],"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":"Journal/Magazine Article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2226632438","display_name":null,"funder_award_id":"GYN18","funder_id":"https://openalex.org/F4320322598","funder_display_name":"Hong Kong Polytechnic University"},{"id":"https://openalex.org/G323350935","display_name":null,"funder_award_id":"PolyU152117114E","funder_id":"https://openalex.org/F4320321592","funder_display_name":"Research Grants Council, University Grants Committee"}],"funders":[{"id":"https://openalex.org/F4320321592","display_name":"Research Grants Council, University Grants Committee","ror":"https://ror.org/00djwmt25"},{"id":"https://openalex.org/F4320322598","display_name":"Hong Kong Polytechnic University","ror":"https://ror.org/0030zas98"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W1277945432.pdf"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W55768394","https://openalex.org/W811317874","https://openalex.org/W1491250132","https://openalex.org/W1491459594","https://openalex.org/W1498867217","https://openalex.org/W1589379007","https://openalex.org/W1969956377","https://openalex.org/W1970460545","https://openalex.org/W1981243744","https://openalex.org/W1982289655","https://openalex.org/W2009703007","https://openalex.org/W2013458354","https://openalex.org/W2017397761","https://openalex.org/W2022020282","https://openalex.org/W2027828642","https://openalex.org/W2030567185","https://openalex.org/W2036956828","https://openalex.org/W2038474719","https://openalex.org/W2043831725","https://openalex.org/W2048960012","https://openalex.org/W2053463056","https://openalex.org/W2056192318","https://openalex.org/W2061070956","https://openalex.org/W2063978378","https://openalex.org/W2072470496","https://openalex.org/W2074552757","https://openalex.org/W2095833325","https://openalex.org/W2102354653","https://openalex.org/W2102645398","https://openalex.org/W2122825543","https://openalex.org/W2132820240","https://openalex.org/W2135046866","https://openalex.org/W2141361074","https://openalex.org/W2143426320","https://openalex.org/W2145957695","https://openalex.org/W2154104502","https://openalex.org/W2157599860","https://openalex.org/W2158714788","https://openalex.org/W2160068277","https://openalex.org/W2165928787","https://openalex.org/W2169952695","https://openalex.org/W2463369377","https://openalex.org/W2479854977","https://openalex.org/W4241497765","https://openalex.org/W6602286067"],"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/W2478288626","https://openalex.org/W4391913857","https://openalex.org/W2033914206","https://openalex.org/W2042327336"],"abstract_inverted_index":{"Membrane":[0],"proteins":[1,17,73],"play":[2,141],"important":[3],"roles":[4,144],"in":[5,145],"various":[6],"biological":[7],"processes":[8],"within":[9],"organisms.":[10],"Predicting":[11],"the":[12,21,147,162,179,182],"functional":[13,78,148,163],"types":[14],"of":[15,23,49,132,165],"membrane":[16,24,35,72,83,167],"is":[18,91,105,185],"indispensable":[19],"to":[20,30,140,175],"characterization":[22],"proteins.":[25,36],"Recent":[26],"studies":[27],"have":[28],"extended":[29],"predicting":[31,71],"single-":[32,75],"and":[33,42,67,76],"multi-type":[34],"However,":[37],"existing":[38,122],"predictors":[39],"perform":[40],"poorly":[41],"more":[43,133,142],"importantly,":[44],"they":[45],"are":[46,138],"often":[47],"lack":[48],"interpretability.":[50],"To":[51],"address":[52],"these":[53,152],"problems,":[54],"this":[55],"paper":[56],"proposes":[57],"an":[58],"efficient":[59],"predictor,":[60],"namely":[61],"Mem-mEN,":[62,129],"which":[63,104],"can":[64,158],"produce":[65],"sparse":[66],"interpretable":[68],"solutions":[69],"for":[70],"with":[74,99],"multi-label":[77,110],"types.":[79,149],"Given":[80],"a":[81,95,109,166],"query":[82],"protein,":[84,168],"its":[85,100],"associated":[86],"gene":[87],"ontology":[88],"(GO)":[89],"information":[90],"retrieved":[92],"by":[93,108,127],"searching":[94],"compact":[96],"GO-term":[97],"database":[98],"homologous":[101],"accession":[102],"number,":[103],"subsequently":[106],"classified":[107],"elastic":[111],"net":[112],"(EN)":[113],"classifier.":[114],"Experimental":[115],"results":[116],"show":[117],"that":[118,176],"Mem-mEN":[119,157,183],"significantly":[120],"outperforms":[121],"state-of-the-art":[123],"membrane-protein":[124],"predictors.":[125],"Moreover,":[126],"using":[128],"338":[130,153],"out":[131],"than":[134],"7,900":[135],"GO":[136,155],"terms":[137],"found":[139],"essential":[143,154],"determining":[146],"Based":[150],"on":[151],"terms,":[156],"not":[159],"only":[160],"predict":[161],"type":[164],"but":[169],"also":[170],"explain":[171],"why":[172],"it":[173],"belongs":[174],"type.":[177],"For":[178],"reader's":[180],"convenience,":[181],"server":[184],"available":[186],"online":[187],"at":[188],"http://bioinfo.eie.polyu.edu.hk/MemmENServer/.":[189]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"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":2019,"cited_by_count":4},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":1}],"updated_date":"2026-03-25T14:56:36.534964","created_date":"2025-10-10T00:00:00"}
