{"id":"https://openalex.org/W2124043195","doi":"https://doi.org/10.1142/s0219720014500176","title":"Identification of inflammatory bowel disease-related proteins using a reverse k-nearest neighbor search","display_name":"Identification of inflammatory bowel disease-related proteins using a reverse k-nearest neighbor search","publication_year":2014,"publication_date":"2014-07-07","ids":{"openalex":"https://openalex.org/W2124043195","doi":"https://doi.org/10.1142/s0219720014500176","mag":"2124043195","pmid":"https://pubmed.ncbi.nlm.nih.gov/25152042"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720014500176","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720014500176","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5013067913","display_name":"Apichat Suratanee","orcid":"https://orcid.org/0000-0002-3439-6619"},"institutions":[{"id":"https://openalex.org/I82828225","display_name":"King Mongkut's University of Technology North Bangkok","ror":"https://ror.org/04fy6jb97","country_code":"TH","type":"education","lineage":["https://openalex.org/I82828225"]}],"countries":["TH"],"is_corresponding":true,"raw_author_name":"Apichat Suratanee","raw_affiliation_strings":["Department of Mathematics, Faculty of Applied Science, King Mongkut's University of Technology North Bangkok, 1518 Pracharat 1 Road, Wongsawang, Bangsue, Bangkok 10800, Thailand"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Faculty of Applied Science, King Mongkut's University of Technology North Bangkok, 1518 Pracharat 1 Road, Wongsawang, Bangsue, Bangkok 10800, Thailand","institution_ids":["https://openalex.org/I82828225"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5079939031","display_name":"Kitiporn Plaimas","orcid":"https://orcid.org/0000-0002-0416-8316"},"institutions":[{"id":"https://openalex.org/I158708052","display_name":"Chulalongkorn University","ror":"https://ror.org/028wp3y58","country_code":"TH","type":"education","lineage":["https://openalex.org/I158708052"]}],"countries":["TH"],"is_corresponding":false,"raw_author_name":"Kitiporn Plaimas","raw_affiliation_strings":["Integrative Bioinformatics and Systems Biology Group, Advanced Virtual and Intelligent Computing Research Center (AVIC), Department of Mathematics and Computer Science, Faculty of Science, Chulalongkorn University, Phyathai Road, Patumwan, Bangkok 10330, Thailand"],"affiliations":[{"raw_affiliation_string":"Integrative Bioinformatics and Systems Biology Group, Advanced Virtual and Intelligent Computing Research Center (AVIC), Department of Mathematics and Computer Science, Faculty of Science, Chulalongkorn University, Phyathai Road, Patumwan, Bangkok 10330, Thailand","institution_ids":["https://openalex.org/I158708052"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5013067913"],"corresponding_institution_ids":["https://openalex.org/I82828225"],"apc_list":null,"apc_paid":null,"fwci":0.8366,"has_fulltext":false,"cited_by_count":16,"citation_normalized_percentile":{"value":0.7285065,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"12","issue":"04","first_page":"1450017","last_page":"1450017"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.991599977016449,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.991599977016449,"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/T10038","display_name":"Tuberculosis Research and Epidemiology","score":0.9851999878883362,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9715999960899353,"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/inflammatory-bowel-disease","display_name":"Inflammatory bowel disease","score":0.6261299848556519},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5476750731468201},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.46089333295822144},{"id":"https://openalex.org/keywords/genome-wide-association-study","display_name":"Genome-wide association study","score":0.45083510875701904},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.41729792952537537},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3004807233810425},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.24775701761245728},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2422705888748169},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.10240107774734497}],"concepts":[{"id":"https://openalex.org/C2778260677","wikidata":"https://www.wikidata.org/wiki/Q917447","display_name":"Inflammatory bowel disease","level":3,"score":0.6261299848556519},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5476750731468201},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.46089333295822144},{"id":"https://openalex.org/C106208931","wikidata":"https://www.wikidata.org/wiki/Q1098876","display_name":"Genome-wide association study","level":5,"score":0.45083510875701904},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.41729792952537537},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3004807233810425},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.24775701761245728},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2422705888748169},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.10240107774734497},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018123","descriptor_name":"Receptors, Interleukin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018123","descriptor_name":"Receptors, Interleukin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018123","descriptor_name":"Receptors, Interleukin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018123","descriptor_name":"Receptors, Interleukin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018123","descriptor_name":"Receptors, Interleukin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018123","descriptor_name":"Receptors, Interleukin","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053614","descriptor_name":"Janus Kinase 2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053614","descriptor_name":"Janus Kinase 2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053614","descriptor_name":"Janus Kinase 2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053614","descriptor_name":"Janus Kinase 2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D053614","descriptor_name":"Janus Kinase 2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D053614","descriptor_name":"Janus Kinase 2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720014500176","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720014500176","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:25152042","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25152042","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":"Journal of bioinformatics and computational biology","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.4300000071525574}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":73,"referenced_works":["https://openalex.org/W82951121","https://openalex.org/W198194329","https://openalex.org/W1125758180","https://openalex.org/W1489348327","https://openalex.org/W1875472058","https://openalex.org/W1965624852","https://openalex.org/W1967229527","https://openalex.org/W1968237507","https://openalex.org/W1971762654","https://openalex.org/W1973651601","https://openalex.org/W1980876918","https://openalex.org/W1981126103","https://openalex.org/W1990026555","https://openalex.org/W1994824702","https://openalex.org/W1999712740","https://openalex.org/W2003390994","https://openalex.org/W2004608617","https://openalex.org/W2010000580","https://openalex.org/W2016499642","https://openalex.org/W2017676790","https://openalex.org/W2019326608","https://openalex.org/W2019622352","https://openalex.org/W2023698875","https://openalex.org/W2026534608","https://openalex.org/W2029810011","https://openalex.org/W2030277915","https://openalex.org/W2033161967","https://openalex.org/W2035595951","https://openalex.org/W2038069695","https://openalex.org/W2039327398","https://openalex.org/W2042183983","https://openalex.org/W2048155677","https://openalex.org/W2048296798","https://openalex.org/W2054473991","https://openalex.org/W2054570291","https://openalex.org/W2056196348","https://openalex.org/W2057545775","https://openalex.org/W2058722872","https://openalex.org/W2062533676","https://openalex.org/W2072602645","https://openalex.org/W2076084249","https://openalex.org/W2076287166","https://openalex.org/W2078621117","https://openalex.org/W2081070862","https://openalex.org/W2083045667","https://openalex.org/W2090766471","https://openalex.org/W2091636880","https://openalex.org/W2093793719","https://openalex.org/W2095652087","https://openalex.org/W2097498614","https://openalex.org/W2107710781","https://openalex.org/W2110556769","https://openalex.org/W2112947018","https://openalex.org/W2114510904","https://openalex.org/W2115618256","https://openalex.org/W2117446594","https://openalex.org/W2119943416","https://openalex.org/W2120388891","https://openalex.org/W2124540200","https://openalex.org/W2129790158","https://openalex.org/W2131848047","https://openalex.org/W2134845483","https://openalex.org/W2137082708","https://openalex.org/W2139263797","https://openalex.org/W2144272365","https://openalex.org/W2152468499","https://openalex.org/W2153280946","https://openalex.org/W2154795016","https://openalex.org/W2155019453","https://openalex.org/W2155153491","https://openalex.org/W2167263540","https://openalex.org/W2170480610","https://openalex.org/W2405371311"],"related_works":["https://openalex.org/W2002128513","https://openalex.org/W2092874662","https://openalex.org/W1991523530","https://openalex.org/W2020824267","https://openalex.org/W2057739827","https://openalex.org/W2075354549","https://openalex.org/W2031436818","https://openalex.org/W2119103177","https://openalex.org/W2748752061","https://openalex.org/W4313527680"],"abstract_inverted_index":{"Inflammatory":[0],"bowel":[1],"disease":[2,7,33,210],"(IBD)":[3],"is":[4,20,27,197],"a":[5,38,45,120,127,198],"chronic":[6],"whose":[8,108],"incidence":[9],"and":[10,40,63,133,177],"prevalence":[11],"increase":[12],"every":[13],"year;":[14],"however,":[15],"the":[16,75,78,88,138,161,174,187,193],"pathogenesis":[17],"of":[18,87,93,143],"IBD":[19,175],"still":[21],"unclear.":[22],"Thus,":[23],"identifying":[24],"IBD-related":[25,58,114,122,149,203],"proteins":[26,89,95,110,115,145,169,204],"important":[28],"for":[29],"understanding":[30],"its":[31,208],"complex":[32,209],"mechanism.":[34,211],"Here,":[35],"we":[36],"propose":[37],"new":[39],"simple":[41],"network-based":[42],"approach":[43],"using":[44],"reverse":[46],"k-nearest":[47,98],"neighbor":[48],"(":[49,100],"R":[50,79,101,188],"k":[51,80,102,130,189],"NN":[52,81,131,190],")":[53],"search":[54,82,191],"to":[55,85,90,165,201,205],"identify":[56,91,202],"novel":[57,121],"proteins.":[59,150],"Protein-protein":[60],"interactions":[61],"(PPI)":[62],"Genome-Wide":[64],"Association":[65],"Studies":[66],"(GWAS)":[67],"were":[68,111,146,155,170],"used":[69],"in":[70,160,173,179,183],"this":[71],"study.":[72],"After":[73],"constructing":[74],"PPI":[76],"network,":[77],"was":[83,116],"applied":[84],"all":[86],"sets":[92],"influenced":[94,109],"among":[96],"their":[97],"neighbors":[99],"NNs":[103],").":[104],"An":[105],"observed":[106],"protein":[107],"mostly":[112],"known":[113],"statistically":[117],"identified":[118,147],"as":[119,148,163],"protein.":[123],"Our":[124],"method":[125],"outperformed":[126],"random":[128],"aspect,":[129],"search,":[132],"centrality":[134],"measures":[135],"based":[136],"on":[137],"network":[139],"topology.":[140],"A":[141],"total":[142],"39":[144],"Of":[151],"these":[152,168],"proteins,":[153],"71%":[154],"reported":[156],"at":[157],"least":[158],"once":[159],"literature":[162],"related":[164],"IBD.":[166,184],"Additionally,":[167],"found":[171],"over-represented":[172],"pathway":[176],"enriched":[178],"importantly":[180],"functional":[181],"pathways":[182],"In":[185],"conclusion,":[186],"with":[192],"statistical":[194],"enrichment":[195],"test":[196],"great":[199],"tool":[200],"better":[206],"understand":[207]},"counts_by_year":[{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":4},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
