{"id":"https://openalex.org/W4412493293","doi":"https://doi.org/10.1007/s10822-025-00614-3","title":"Comparison study of dominant molecular sequence representation based on diffusion model","display_name":"Comparison study of dominant molecular sequence representation based on diffusion model","publication_year":2025,"publication_date":"2025-07-18","ids":{"openalex":"https://openalex.org/W4412493293","doi":"https://doi.org/10.1007/s10822-025-00614-3","pmid":"https://pubmed.ncbi.nlm.nih.gov/40679539"},"language":"en","primary_location":{"id":"doi:10.1007/s10822-025-00614-3","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s10822-025-00614-3","pdf_url":null,"source":{"id":"https://openalex.org/S64621741","display_name":"Journal of Computer-Aided Molecular Design","issn_l":"0920-654X","issn":["0920-654X","1573-4951"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Computer-Aided Molecular Design","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/A5044175639","display_name":"Yongrui Cui","orcid":null},"institutions":[{"id":"https://openalex.org/I4210092944","display_name":"Dalian University","ror":"https://ror.org/00g2ypp58","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210092944"]},{"id":"https://openalex.org/I61565387","display_name":"Dalian Minzu University","ror":"https://ror.org/02hxfx521","country_code":"CN","type":"education","lineage":["https://openalex.org/I61565387"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yongrui Cui","raw_affiliation_strings":["School of Computer Science and Engineering, Dalian Minzu University, Dalian, Liaoning Province, 116600, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Dalian Minzu University, Dalian, Liaoning Province, 116600, China","institution_ids":["https://openalex.org/I4210092944","https://openalex.org/I61565387"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019204595","display_name":"Dongjing Shan","orcid":"https://orcid.org/0000-0001-6386-6096"},"institutions":[{"id":"https://openalex.org/I3017480383","display_name":"Southwest Medical University","ror":"https://ror.org/00g2rqs52","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I3017480383"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongjing Shan","raw_affiliation_strings":["School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China","institution_ids":["https://openalex.org/I3017480383"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102619047","display_name":"Q. W. Lu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210092944","display_name":"Dalian University","ror":"https://ror.org/00g2ypp58","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210092944"]},{"id":"https://openalex.org/I61565387","display_name":"Dalian Minzu University","ror":"https://ror.org/02hxfx521","country_code":"CN","type":"education","lineage":["https://openalex.org/I61565387"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qiheng Lu","raw_affiliation_strings":["School of Computer Science and Engineering, Dalian Minzu University, Dalian, Liaoning Province, 116600, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Dalian Minzu University, Dalian, Liaoning Province, 116600, China","institution_ids":["https://openalex.org/I4210092944","https://openalex.org/I61565387"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107031715","display_name":"Beijia Zou","orcid":null},"institutions":[{"id":"https://openalex.org/I3017480383","display_name":"Southwest Medical University","ror":"https://ror.org/00g2rqs52","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I3017480383"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Beijia Zou","raw_affiliation_strings":["School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China","institution_ids":["https://openalex.org/I3017480383"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082369941","display_name":"Huali Zhang","orcid":"https://orcid.org/0000-0002-0788-7092"},"institutions":[{"id":"https://openalex.org/I3017480383","display_name":"Southwest Medical University","ror":"https://ror.org/00g2rqs52","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I3017480383"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Huali Zhang","raw_affiliation_strings":["School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China","institution_ids":["https://openalex.org/I3017480383"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100678194","display_name":"Jin Li","orcid":"https://orcid.org/0000-0001-8947-8892"},"institutions":[{"id":"https://openalex.org/I3017480383","display_name":"Southwest Medical University","ror":"https://ror.org/00g2rqs52","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I3017480383"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jin Li","raw_affiliation_strings":["School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China. eddyblue@swmu.edu.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China. eddyblue@swmu.edu.cn","institution_ids":["https://openalex.org/I3017480383"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086116475","display_name":"Jiashun Mao","orcid":"https://orcid.org/0000-0002-3545-354X"},"institutions":[{"id":"https://openalex.org/I3017480383","display_name":"Southwest Medical University","ror":"https://ror.org/00g2rqs52","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I3017480383"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jiashun Mao","raw_affiliation_strings":["School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China. jiashun_mao@swmu.edu.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Medical Information and Engineering, Southwest Medical University, Luzhou, Sichuan Province, 646000, China. jiashun_mao@swmu.edu.cn","institution_ids":["https://openalex.org/I3017480383"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5086116475"],"corresponding_institution_ids":["https://openalex.org/I3017480383"],"apc_list":{"value":3690,"currency":"USD","value_usd":3690},"apc_paid":null,"fwci":3.8605,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.94119509,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"39","issue":"1","first_page":"54","last_page":"54"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"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"}},{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10911","display_name":"Chemical Synthesis and Analysis","score":0.987500011920929,"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/representation","display_name":"Representation (politics)","score":0.7113090753555298},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6385760307312012},{"id":"https://openalex.org/keywords/generative-model","display_name":"Generative model","score":0.5611069798469543},{"id":"https://openalex.org/keywords/granularity","display_name":"Granularity","score":0.5229966640472412},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.49091702699661255},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.44694116711616516},{"id":"https://openalex.org/keywords/generative-grammar","display_name":"Generative grammar","score":0.41882529854774475},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4177877902984619},{"id":"https://openalex.org/keywords/chemical-nomenclature","display_name":"Chemical nomenclature","score":0.4164932370185852},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2517337501049042},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1276453137397766},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08245807886123657}],"concepts":[{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.7113090753555298},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6385760307312012},{"id":"https://openalex.org/C167966045","wikidata":"https://www.wikidata.org/wiki/Q5532625","display_name":"Generative model","level":3,"score":0.5611069798469543},{"id":"https://openalex.org/C177774035","wikidata":"https://www.wikidata.org/wiki/Q1246948","display_name":"Granularity","level":2,"score":0.5229966640472412},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.49091702699661255},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.44694116711616516},{"id":"https://openalex.org/C39890363","wikidata":"https://www.wikidata.org/wiki/Q36108","display_name":"Generative grammar","level":2,"score":0.41882529854774475},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4177877902984619},{"id":"https://openalex.org/C125832229","wikidata":"https://www.wikidata.org/wiki/Q6503924","display_name":"Chemical nomenclature","level":2,"score":0.4164932370185852},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2517337501049042},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1276453137397766},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08245807886123657},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"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":"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":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1007/s10822-025-00614-3","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s10822-025-00614-3","pdf_url":null,"source":{"id":"https://openalex.org/S64621741","display_name":"Journal of Computer-Aided Molecular Design","issn_l":"0920-654X","issn":["0920-654X","1573-4951"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Computer-Aided Molecular Design","raw_type":"journal-article"},{"id":"pmid:40679539","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40679539","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 computer-aided molecular design","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W1991615245","https://openalex.org/W1998111652","https://openalex.org/W2023818227","https://openalex.org/W2034549041","https://openalex.org/W2066273100","https://openalex.org/W2160592148","https://openalex.org/W2171955717","https://openalex.org/W2177317049","https://openalex.org/W2529996553","https://openalex.org/W2891800472","https://openalex.org/W2966421984","https://openalex.org/W2973114758","https://openalex.org/W3009999522","https://openalex.org/W3098269892","https://openalex.org/W3116865743","https://openalex.org/W3158543275","https://openalex.org/W3177624059","https://openalex.org/W3209056694","https://openalex.org/W4220670676","https://openalex.org/W4220802400","https://openalex.org/W4233253307","https://openalex.org/W4283750135","https://openalex.org/W4306179830","https://openalex.org/W4312933868","https://openalex.org/W4313485929","https://openalex.org/W4379520927","https://openalex.org/W4382182163"],"related_works":["https://openalex.org/W4365211920","https://openalex.org/W3014948380","https://openalex.org/W4391584540","https://openalex.org/W4380551139","https://openalex.org/W4317695495","https://openalex.org/W4395044357","https://openalex.org/W4287117424","https://openalex.org/W4387506531","https://openalex.org/W2087346071","https://openalex.org/W2967848559"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
