{"id":"https://openalex.org/W7155008219","doi":"https://doi.org/10.1016/j.compbiolchem.2026.109056","title":"Predicting biomolecular interactions via a dual-stream graph neural network with motif constraint and diffusion-based regularization","display_name":"Predicting biomolecular interactions via a dual-stream graph neural network with motif constraint and diffusion-based regularization","publication_year":2026,"publication_date":"2026-04-20","ids":{"openalex":"https://openalex.org/W7155008219","doi":"https://doi.org/10.1016/j.compbiolchem.2026.109056","pmid":"https://pubmed.ncbi.nlm.nih.gov/42019100"},"language":"en","primary_location":{"id":"doi:10.1016/j.compbiolchem.2026.109056","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.compbiolchem.2026.109056","pdf_url":null,"source":{"id":"https://openalex.org/S104924063","display_name":"Computational Biology and Chemistry","issn_l":"1476-9271","issn":["1476-9271","1476-928X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computational Biology and Chemistry","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/A5134070475","display_name":"Danyu Li","orcid":"https://orcid.org/0009-0001-8884-152X"},"institutions":[{"id":"https://openalex.org/I111950717","display_name":"Macau University of Science and Technology","ror":"https://ror.org/03jqs2n27","country_code":"MO","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I4391767947"]}],"countries":["MO"],"is_corresponding":false,"raw_author_name":"Danyu Li","raw_affiliation_strings":["School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China. Electronic address: 3230002471@student.must.edu.mo"],"raw_orcid":"https://orcid.org/0009-0001-8884-152X","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China. Electronic address: 3230002471@student.must.edu.mo","institution_ids":["https://openalex.org/I111950717"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053562000","display_name":"Rubing Huang","orcid":"https://orcid.org/0000-0002-1769-6126"},"institutions":[{"id":"https://openalex.org/I111950717","display_name":"Macau University of Science and Technology","ror":"https://ror.org/03jqs2n27","country_code":"MO","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I4391767947"]}],"countries":["MO"],"is_corresponding":true,"raw_author_name":"Rubing Huang","raw_affiliation_strings":["School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China; Macau University of Science and Technology Zhuhai MUST Science and Technology Research Institute, Zhuhai, 519099, Guangdong, China. Electronic address: rbhuang@must.edu.mo"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China; Macau University of Science and Technology Zhuhai MUST Science and Technology Research Institute, Zhuhai, 519099, Guangdong, China. Electronic address: rbhuang@must.edu.mo","institution_ids":["https://openalex.org/I111950717"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134064559","display_name":"Ling Zhou","orcid":null},"institutions":[{"id":"https://openalex.org/I111950717","display_name":"Macau University of Science and Technology","ror":"https://ror.org/03jqs2n27","country_code":"MO","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I4391767947"]}],"countries":["MO"],"is_corresponding":false,"raw_author_name":"Ling Zhou","raw_affiliation_strings":["School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China. Electronic address: lzhou@must.edu.mo"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China. Electronic address: lzhou@must.edu.mo","institution_ids":["https://openalex.org/I111950717"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134047553","display_name":"Jinyu Tian","orcid":null},"institutions":[{"id":"https://openalex.org/I111950717","display_name":"Macau University of Science and Technology","ror":"https://ror.org/03jqs2n27","country_code":"MO","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I4391767947"]}],"countries":["MO"],"is_corresponding":false,"raw_author_name":"Jinyu Tian","raw_affiliation_strings":["School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China. Electronic address: jytian@must.edu.mo"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Macau University of Science and Technology, 999078, Macao Special Administrative Region of China. Electronic address: jytian@must.edu.mo","institution_ids":["https://openalex.org/I111950717"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134016140","display_name":"Shikai Guo","orcid":null},"institutions":[{"id":"https://openalex.org/I43313876","display_name":"Dalian Maritime University","ror":"https://ror.org/002b7nr53","country_code":"CN","type":"education","lineage":["https://openalex.org/I43313876"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shikai Guo","raw_affiliation_strings":["School of Information Science and Technology, Dalian Maritime University, Dalian, Liaoning, 116026, China. Electronic address: shikai.guo@dlmu.edu.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information Science and Technology, Dalian Maritime University, Dalian, Liaoning, 116026, China. Electronic address: shikai.guo@dlmu.edu.cn","institution_ids":["https://openalex.org/I43313876"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5134039745","display_name":"Bin Zou","orcid":null},"institutions":[{"id":"https://openalex.org/I115592961","display_name":"Jiangsu University","ror":"https://ror.org/03jc41j30","country_code":"CN","type":"education","lineage":["https://openalex.org/I115592961"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bin Zou","raw_affiliation_strings":["School of Food and Biological Engineering, Jiangsu University, Zhenjiang, Jiangsu, 212013, China. Electronic address: binzou2009@ujs.edu.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Food and Biological Engineering, Jiangsu University, Zhenjiang, Jiangsu, 212013, China. Electronic address: binzou2009@ujs.edu.cn","institution_ids":["https://openalex.org/I115592961"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5053562000"],"corresponding_institution_ids":["https://openalex.org/I111950717"],"apc_list":{"value":2960,"currency":"USD","value_usd":2960},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.45168824,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"124","issue":"Pt 1","first_page":"109056","last_page":"109056"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11273","display_name":"Advanced Graph Neural Networks","score":0.28459998965263367,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11273","display_name":"Advanced Graph Neural Networks","score":0.28459998965263367,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.2004999965429306,"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/T10320","display_name":"Neural Networks and Applications","score":0.08150000125169754,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/regularization","display_name":"Regularization (linguistics)","score":0.5878999829292297},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.555899977684021},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5534999966621399},{"id":"https://openalex.org/keywords/constraint","display_name":"Constraint (computer-aided design)","score":0.5052000284194946},{"id":"https://openalex.org/keywords/motif","display_name":"Motif (music)","score":0.45840001106262207},{"id":"https://openalex.org/keywords/deep-neural-networks","display_name":"Deep neural networks","score":0.4131999909877777}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.630299985408783},{"id":"https://openalex.org/C2776135515","wikidata":"https://www.wikidata.org/wiki/Q17143721","display_name":"Regularization (linguistics)","level":2,"score":0.5878999829292297},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.555899977684021},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5534999966621399},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5496000051498413},{"id":"https://openalex.org/C2776036281","wikidata":"https://www.wikidata.org/wiki/Q48769818","display_name":"Constraint (computer-aided design)","level":2,"score":0.5052000284194946},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.45840001106262207},{"id":"https://openalex.org/C2984842247","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep neural networks","level":3,"score":0.4131999909877777},{"id":"https://openalex.org/C147764199","wikidata":"https://www.wikidata.org/wiki/Q6865248","display_name":"Minification","level":2,"score":0.38089999556541443},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.359499990940094},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.34940001368522644},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3093000054359436},{"id":"https://openalex.org/C88230418","wikidata":"https://www.wikidata.org/wiki/Q131476","display_name":"Graph theory","level":2,"score":0.29760000109672546},{"id":"https://openalex.org/C3018263672","wikidata":"https://www.wikidata.org/wiki/Q1296251","display_name":"Efficient algorithm","level":2,"score":0.29030001163482666},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.25760000944137573},{"id":"https://openalex.org/C146380142","wikidata":"https://www.wikidata.org/wiki/Q1137726","display_name":"Directed graph","level":2,"score":0.2563000023365021}],"mesh":[{"descriptor_ui":"D000098422","descriptor_name":"Graph Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1016/j.compbiolchem.2026.109056","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.compbiolchem.2026.109056","pdf_url":null,"source":{"id":"https://openalex.org/S104924063","display_name":"Computational Biology and Chemistry","issn_l":"1476-9271","issn":["1476-9271","1476-928X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computational Biology and Chemistry","raw_type":"journal-article"},{"id":"pmid:42019100","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42019100","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":"Computational biology and chemistry","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320323893","display_name":"Fundo para o Desenvolvimento das Ci\u00eancias e da Tecnologia","ror":"https://ror.org/05vna4324"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":67,"referenced_works":["https://openalex.org/W1483099488","https://openalex.org/W1600777628","https://openalex.org/W2021036768","https://openalex.org/W2025150647","https://openalex.org/W2032288764","https://openalex.org/W2041877620","https://openalex.org/W2044523575","https://openalex.org/W2074141093","https://openalex.org/W2083630376","https://openalex.org/W2088038235","https://openalex.org/W2097694646","https://openalex.org/W2111761681","https://openalex.org/W2121444044","https://openalex.org/W2148399939","https://openalex.org/W2156125289","https://openalex.org/W2157115235","https://openalex.org/W2162392441","https://openalex.org/W2340806531","https://openalex.org/W2415067505","https://openalex.org/W2507804718","https://openalex.org/W2561871078","https://openalex.org/W2596548376","https://openalex.org/W2791845676","https://openalex.org/W2808777650","https://openalex.org/W2808839066","https://openalex.org/W2901613208","https://openalex.org/W2908867979","https://openalex.org/W2920083709","https://openalex.org/W2950473530","https://openalex.org/W2957180077","https://openalex.org/W2975324918","https://openalex.org/W2981958531","https://openalex.org/W3000215093","https://openalex.org/W3003703043","https://openalex.org/W3012898475","https://openalex.org/W3020930839","https://openalex.org/W3097258506","https://openalex.org/W3108333826","https://openalex.org/W3130271948","https://openalex.org/W3144812654","https://openalex.org/W3157413134","https://openalex.org/W3170959707","https://openalex.org/W3189693140","https://openalex.org/W3202711716","https://openalex.org/W4224221080","https://openalex.org/W4225149351","https://openalex.org/W4296293027","https://openalex.org/W4310388280","https://openalex.org/W4317702940","https://openalex.org/W4321851522","https://openalex.org/W4327550249","https://openalex.org/W4327718177","https://openalex.org/W4375954779","https://openalex.org/W4392553889","https://openalex.org/W4392785459","https://openalex.org/W4392817525","https://openalex.org/W4393317162","https://openalex.org/W4394014430","https://openalex.org/W4394893991","https://openalex.org/W4400885244","https://openalex.org/W4405868877","https://openalex.org/W4407390518","https://openalex.org/W4407596728","https://openalex.org/W4409886548","https://openalex.org/W4410065093","https://openalex.org/W4415020412","https://openalex.org/W7125922394"],"related_works":[],"abstract_inverted_index":null,"counts_by_year":[],"updated_date":"2026-06-14T06:11:07.267592","created_date":"2026-04-21T00:00:00"}
