{"id":"https://openalex.org/W4410396119","doi":"https://doi.org/10.1021/acs.jcim.5c00694","title":"GMAMDA: Predicting Metabolite\u2013Disease Associations Based on Adaptive Hardness Negative Sampling and Adaptive Graph Multiple Convolution","display_name":"GMAMDA: Predicting Metabolite\u2013Disease Associations Based on Adaptive Hardness Negative Sampling and Adaptive Graph Multiple Convolution","publication_year":2025,"publication_date":"2025-05-15","ids":{"openalex":"https://openalex.org/W4410396119","doi":"https://doi.org/10.1021/acs.jcim.5c00694","pmid":"https://pubmed.ncbi.nlm.nih.gov/40372801"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.5c00694","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c00694","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","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/A5019214983","display_name":"Bo Hu","orcid":"https://orcid.org/0000-0002-9491-4123"},"institutions":[{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Binglu Hu","raw_affiliation_strings":["College of Software","Xinjiang University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Software","institution_ids":[]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107218940","display_name":"Ying Su","orcid":"https://orcid.org/0000-0001-8355-4903"},"institutions":[{"id":"https://openalex.org/I4210158959","display_name":"Detection Limit (United States)","ror":"https://ror.org/03mcj3013","country_code":"US","type":"company","lineage":["https://openalex.org/I4210158959"]},{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Ying Su","raw_affiliation_strings":["College of Information Science and Engineering","Xinjiang Aiqiside Detection Technology Co, Ltd","Xinjiang University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Science and Engineering","institution_ids":[]},{"raw_affiliation_string":"Xinjiang Aiqiside Detection Technology Co, Ltd","institution_ids":["https://openalex.org/I4210158959"]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008322177","display_name":"Xuecong Tian","orcid":"https://orcid.org/0009-0007-0894-3758"},"institutions":[{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuecong Tian","raw_affiliation_strings":["College of Information Science and Engineering","Xinjiang University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Science and Engineering","institution_ids":[]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100418548","display_name":"Chen Chen","orcid":"https://orcid.org/0000-0003-2104-534X"},"institutions":[{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Chen Chen","raw_affiliation_strings":["College of Software","Xinjiang University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Software","institution_ids":[]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100418548","display_name":"Chen Chen","orcid":"https://orcid.org/0000-0003-2104-534X"},"institutions":[{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chen Chen","raw_affiliation_strings":["College of Software","Xinjiang University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Software","institution_ids":[]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100690719","display_name":"Cheng Chen","orcid":"https://orcid.org/0000-0002-6739-1937"},"institutions":[{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Cheng Chen","raw_affiliation_strings":["College of Software","Xinjiang University"],"raw_orcid":"https://orcid.org/0000-0002-6739-1937","affiliations":[{"raw_affiliation_string":"College of Software","institution_ids":[]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100690719","display_name":"Cheng Chen","orcid":"https://orcid.org/0000-0002-6739-1937"},"institutions":[{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cheng Chen","raw_affiliation_strings":["College of Software","Xinjiang University"],"raw_orcid":"https://orcid.org/0000-0002-6739-1937","affiliations":[{"raw_affiliation_string":"College of Software","institution_ids":[]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084962743","display_name":"Xiaoyi Lv","orcid":"https://orcid.org/0000-0001-6855-7428"},"institutions":[{"id":"https://openalex.org/I96908189","display_name":"Xinjiang University","ror":"https://ror.org/059gw8r13","country_code":"CN","type":"education","lineage":["https://openalex.org/I96908189"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaoyi Lv","raw_affiliation_strings":["College of Software","Xinjiang University"],"raw_orcid":"https://orcid.org/0000-0001-6855-7428","affiliations":[{"raw_affiliation_string":"College of Software","institution_ids":[]},{"raw_affiliation_string":"Xinjiang University","institution_ids":["https://openalex.org/I96908189"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5084962743","https://openalex.org/A5100418548","https://openalex.org/A5100690719"],"corresponding_institution_ids":["https://openalex.org/I96908189"],"apc_list":null,"apc_paid":null,"fwci":1.872,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.84908743,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"65","issue":"10","first_page":"5242","last_page":"5254"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9970999956130981,"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":0.9947999715805054,"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/graph","display_name":"Graph","score":0.575683057308197},{"id":"https://openalex.org/keywords/metabolite","display_name":"Metabolite","score":0.5245423913002014},{"id":"https://openalex.org/keywords/convolution","display_name":"Convolution (computer science)","score":0.49106574058532715},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4386715292930603},{"id":"https://openalex.org/keywords/sampling","display_name":"Sampling (signal processing)","score":0.4266824722290039},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3909718990325928},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3387296199798584},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3270438015460968},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2469603717327118},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.18430712819099426},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.1768239438533783}],"concepts":[{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.575683057308197},{"id":"https://openalex.org/C2777477808","wikidata":"https://www.wikidata.org/wiki/Q407595","display_name":"Metabolite","level":2,"score":0.5245423913002014},{"id":"https://openalex.org/C45347329","wikidata":"https://www.wikidata.org/wiki/Q5166604","display_name":"Convolution (computer science)","level":3,"score":0.49106574058532715},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4386715292930603},{"id":"https://openalex.org/C140779682","wikidata":"https://www.wikidata.org/wiki/Q210868","display_name":"Sampling (signal processing)","level":3,"score":0.4266824722290039},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3909718990325928},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3387296199798584},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3270438015460968},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2469603717327118},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.18430712819099426},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.1768239438533783},{"id":"https://openalex.org/C106131492","wikidata":"https://www.wikidata.org/wiki/Q3072260","display_name":"Filter (signal processing)","level":2,"score":0.0},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.0},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1021/acs.jcim.5c00694","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.5c00694","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:40372801","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40372801","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 chemical information and modeling","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/2","score":0.4300000071525574,"display_name":"Zero hunger"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":52,"referenced_works":["https://openalex.org/W1969042813","https://openalex.org/W1980969588","https://openalex.org/W2009033874","https://openalex.org/W2016741118","https://openalex.org/W2017771330","https://openalex.org/W2039069312","https://openalex.org/W2057295404","https://openalex.org/W2076534876","https://openalex.org/W2138874874","https://openalex.org/W2141222510","https://openalex.org/W2333815440","https://openalex.org/W2339031854","https://openalex.org/W2512638651","https://openalex.org/W2796909069","https://openalex.org/W2965717703","https://openalex.org/W2981895524","https://openalex.org/W3004471524","https://openalex.org/W3009246021","https://openalex.org/W3011809564","https://openalex.org/W3017930057","https://openalex.org/W3038069438","https://openalex.org/W3043440374","https://openalex.org/W3080456792","https://openalex.org/W3092397780","https://openalex.org/W3106165797","https://openalex.org/W3106445281","https://openalex.org/W3135690269","https://openalex.org/W3172854437","https://openalex.org/W3197149044","https://openalex.org/W3215755691","https://openalex.org/W4206046172","https://openalex.org/W4206447491","https://openalex.org/W4206774749","https://openalex.org/W4211136945","https://openalex.org/W4220921222","https://openalex.org/W4285076853","https://openalex.org/W4297457250","https://openalex.org/W4315434906","https://openalex.org/W4362594096","https://openalex.org/W4384664737","https://openalex.org/W4385475774","https://openalex.org/W4391515083","https://openalex.org/W4391897268","https://openalex.org/W4393153659","https://openalex.org/W4394853685","https://openalex.org/W4400391364","https://openalex.org/W4401019921","https://openalex.org/W4401567699","https://openalex.org/W4402810392","https://openalex.org/W4402857655","https://openalex.org/W4407016897","https://openalex.org/W4408139974"],"related_works":["https://openalex.org/W2521903434","https://openalex.org/W1753739957","https://openalex.org/W2085913165","https://openalex.org/W2011282322","https://openalex.org/W2024044986","https://openalex.org/W2005550771","https://openalex.org/W323632276","https://openalex.org/W2418404479","https://openalex.org/W2078089453","https://openalex.org/W2016858531"],"abstract_inverted_index":{"Metabolites":[0],"are":[1,132],"small":[2],"molecules":[3],"produced":[4],"during":[5],"organism":[6],"metabolism,":[7],"with":[8,182],"their":[9,77],"abnormal":[10],"concentrations":[11],"closely":[12],"linked":[13],"to":[14,92,113,146,178],"the":[15,42,49,58,139,183,190],"onset":[16],"and":[17,34,47,107,126,198,221,232],"progression":[18],"of":[19,24,44,51,60,192],"various":[20,152,209],"diseases.":[21,199],"Accurate":[22],"prediction":[23,87,191],"metabolite-disease":[25,85,116,135],"associations":[26,194],"is":[27,90,144],"crucial":[28],"for":[29,71,124,134,187],"early":[30],"diagnosis,":[31],"mechanistic":[32],"exploration,":[33],"treatment":[35],"optimization.":[36],"However,":[37],"existing":[38],"algorithms":[39],"often":[40],"overlook":[41],"integration":[43],"node":[45,149],"features":[46],"neglect":[48],"impact":[50],"different":[52,160],"hop":[53,161],"domains":[54],"on":[55,68,174,229],"nodes":[56],"in":[57,240],"processing":[59],"heterogeneous":[61,129,153],"graphs.":[62],"Furthermore,":[63],"current":[64],"methods":[65,207],"solely":[66],"rely":[67],"random":[69],"sampling":[70,171],"selecting":[72],"negative":[73,100,170,180],"samples":[74,181],"without":[75],"considering":[76],"reliability,":[78],"thereby":[79],"compromising":[80],"model":[81,164],"stability.":[82],"A":[83],"novel":[84],"association":[86,136],"model,":[88],"GMAMDA,":[89],"proposed":[91],"address":[93],"these":[94],"challenges.":[95],"GMAMDA":[96,204],"integrates":[97],"adaptive":[98,102,140,168],"hardness":[99,169],"sampling,":[101],"graph":[103,110,130],"multiple":[104,128],"convolution":[105],"techniques,":[106],"a":[108],"multiheterogeneous":[109],"fusion":[111],"strategy":[112],"forecast":[114],"potential":[115,193,239],"associations.":[117],"Initially,":[118],"by":[119,155],"computing":[120],"multisource":[121],"similarity":[122],"information":[123,158,185],"metabolites":[125,197],"diseases,":[127],"networks":[131],"established":[133],"networks.":[137],"Subsequently,":[138],"graph's":[141],"multiconvolution":[142],"mechanism":[143],"employed":[145],"generate":[147],"feature-rich":[148],"representations":[150],"across":[151,208],"graphs":[154],"dynamically":[156],"leveraging":[157],"from":[159],"neighborhoods.":[162],"The":[163],"then":[165],"utilizes":[166],"an":[167],"approach":[172],"based":[173],"principal":[175],"component":[176],"analysis":[177],"select":[179],"highest":[184],"content":[186],"training,":[188],"enabling":[189],"between":[195],"new":[196],"Experimental":[200],"findings":[201],"demonstrate":[202],"that":[203],"outperforms":[205],"state-of-the-art":[206],"evaluation":[210],"metrics,":[211],"including":[212],"AUC":[213],"(0.9962":[214],"\u00b1":[215,219,224],"0.0014),":[216],"AUPR":[217],"(0.9967":[218],"0.0009),":[220],"accuracy":[222],"(0.9733":[223],"0.0042).":[225],"Case":[226],"studies":[227],"focusing":[228],"Alzheimer's":[230],"disease":[231,234],"kidney":[233],"further":[235],"validate":[236],"GMAMDA's":[237],"clinical":[238],"predicting":[241],"metabolite":[242],"markers.":[243]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2}],"updated_date":"2026-05-24T08:33:08.758527","created_date":"2025-10-10T00:00:00"}
