{"id":"https://openalex.org/W4404988997","doi":"https://doi.org/10.1186/s13321-026-01201-w","title":"A general-purpose framework for chemical reaction representation with atomic correspondence and flexible condition adaptation","display_name":"A general-purpose framework for chemical reaction representation with atomic correspondence and flexible condition adaptation","publication_year":2026,"publication_date":"2026-05-05","ids":{"openalex":"https://openalex.org/W4404988997","doi":"https://doi.org/10.1186/s13321-026-01201-w","pmid":"https://pubmed.ncbi.nlm.nih.gov/42083067"},"language":"en","primary_location":{"id":"doi:10.1186/s13321-026-01201-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-026-01201-w","pdf_url":null,"source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"type":"article","indexed_in":["arxiv","crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1186/s13321-026-01201-w","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073063939","display_name":"Kaipeng Zeng","orcid":"https://orcid.org/0000-0002-4798-7784"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I2802974365","display_name":"Shanghai Innovative Research Center of Traditional Chinese Medicine","ror":"https://ror.org/01gnagj68","country_code":"CN","type":"facility","lineage":["https://openalex.org/I2802974365"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kaipeng Zeng","raw_affiliation_strings":["MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China","Shanghai Innovation Institute, Shanghai, 200231, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Innovation Institute, Shanghai, 200231, Shanghai, China","institution_ids":["https://openalex.org/I2802974365"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063486734","display_name":"Xianbin Liu","orcid":"https://orcid.org/0000-0002-6266-6153"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xianbin Liu","raw_affiliation_strings":["MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115596465","display_name":"Zihan Zhang","orcid":"https://orcid.org/0000-0001-8910-177X"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yu Zhang","raw_affiliation_strings":["MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114832425","display_name":"Xiaokang Yang","orcid":"https://orcid.org/0009-0001-7486-0471"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaokang Yang","raw_affiliation_strings":["MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085787425","display_name":"Yaohui Jin","orcid":"https://orcid.org/0000-0001-6158-6277"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yaohui Jin","raw_affiliation_strings":["MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China. jinyh@sjtu.edu.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China. jinyh@sjtu.edu.cn","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009029522","display_name":"Yanyan Xu","orcid":"https://orcid.org/0000-0002-3357-249X"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yanyan Xu","raw_affiliation_strings":["MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China. yanyanxu@sjtu.edu.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MoE Key Lab of Artificial Intelligence, AI Institute, School of Computer Science, Shanghai Jiao Tong University, Shanghai, 200240, Shanghai, China. yanyanxu@sjtu.edu.cn","institution_ids":["https://openalex.org/I183067930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5009029522","https://openalex.org/A5085787425"],"corresponding_institution_ids":["https://openalex.org/I183067930"],"apc_list":{"value":2190,"currency":"USD","value_usd":2190},"apc_paid":{"value":2190,"currency":"USD","value_usd":2190},"fwci":0.0,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.02211525,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"18","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9939000010490417,"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":0.9939000010490417,"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/T10908","display_name":"Analytical Chemistry and Chromatography","score":0.9710999727249146,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12327","display_name":"Various Chemistry Research Topics","score":0.9545000195503235,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.6539807319641113},{"id":"https://openalex.org/keywords/product","display_name":"Product (mathematics)","score":0.5802217721939087},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.410567045211792},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.39536237716674805},{"id":"https://openalex.org/keywords/process-engineering","display_name":"Process engineering","score":0.36914339661598206},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2558165192604065},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.16922453045845032},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.09078475832939148},{"id":"https://openalex.org/keywords/political-science","display_name":"Political science","score":0.07155188918113708}],"concepts":[{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.6539807319641113},{"id":"https://openalex.org/C90673727","wikidata":"https://www.wikidata.org/wiki/Q901718","display_name":"Product (mathematics)","level":2,"score":0.5802217721939087},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.410567045211792},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.39536237716674805},{"id":"https://openalex.org/C21880701","wikidata":"https://www.wikidata.org/wiki/Q2144042","display_name":"Process engineering","level":1,"score":0.36914339661598206},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2558165192604065},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.16922453045845032},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.09078475832939148},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.07155188918113708},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","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}],"mesh":[],"locations_count":7,"locations":[{"id":"doi:10.1186/s13321-026-01201-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-026-01201-w","pdf_url":null,"source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},{"id":"pmid:42083067","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42083067","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 cheminformatics","raw_type":"Journal Article"},{"id":"pmh:oai:arXiv.org:2411.17629","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2411.17629","pdf_url":"https://arxiv.org/pdf/2411.17629","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-sa","license_id":"https://openalex.org/licenses/cc-by-nc-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"},{"id":"pmh:oai:arXiv.org:2411.17629","is_oa":true,"landing_page_url":"https://arxiv.org/abs/2411.17629","pdf_url":"https://arxiv.org/pdf/2411.17629","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-sa","license_id":"https://openalex.org/licenses/cc-by-nc-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"pmh:oai:doaj.org/article:6d68aea2a2a64566b4978c525d9a3fe7","is_oa":false,"landing_page_url":"https://doaj.org/article/6d68aea2a2a64566b4978c525d9a3fe7","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Cheminformatics, Vol 18, Iss 1 (2026)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:13371512","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13371512/","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Cheminform","raw_type":"Text"},{"id":"doi:10.48550/arxiv.2411.17629","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2411.17629","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Preprint"}],"best_oa_location":{"id":"doi:10.1186/s13321-026-01201-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-026-01201-w","pdf_url":null,"source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G5961983910","display_name":null,"funder_award_id":"72432007","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W2785942661","https://openalex.org/W4322746608","https://openalex.org/W4307410169","https://openalex.org/W2199320022","https://openalex.org/W3042021489","https://openalex.org/W4393147868","https://openalex.org/W2295598076","https://openalex.org/W3189831819","https://openalex.org/W2033788780","https://openalex.org/W2901942917","https://openalex.org/W4400651353","https://openalex.org/W2072550304","https://openalex.org/W3114339437","https://openalex.org/W4392385419","https://openalex.org/W4384389969","https://openalex.org/W4390221451","https://openalex.org/W4226159083","https://openalex.org/W4382458099","https://openalex.org/W3209726219","https://openalex.org/W4206063340","https://openalex.org/W4380870591","https://openalex.org/W3023459419","https://openalex.org/W4220902634","https://openalex.org/W3094332970","https://openalex.org/W3091789543","https://openalex.org/W4393148714","https://openalex.org/W2938287325","https://openalex.org/W4226145240","https://openalex.org/W4386316902","https://openalex.org/W2883583109","https://openalex.org/W3012519883","https://openalex.org/W2947423323","https://openalex.org/W3146384714","https://openalex.org/W3123901912","https://openalex.org/W3118349318","https://openalex.org/W3138801267","https://openalex.org/W4392142888","https://openalex.org/W4385490607","https://openalex.org/W4386399680","https://openalex.org/W4405110189","https://openalex.org/W1975147762","https://openalex.org/W4411946172","https://openalex.org/W7133188530","https://openalex.org/W4387937021","https://openalex.org/W2910222073","https://openalex.org/W4400658834","https://openalex.org/W4390873054","https://openalex.org/W4417400801","https://openalex.org/W4323304388"],"related_works":["https://openalex.org/W4387497383","https://openalex.org/W2948807893","https://openalex.org/W2899084033","https://openalex.org/W2778153218","https://openalex.org/W2748952813","https://openalex.org/W1531601525","https://openalex.org/W4391375266","https://openalex.org/W2078814861","https://openalex.org/W2527526854","https://openalex.org/W1976181487"],"abstract_inverted_index":{"MOTIVATION:":[0],"Organic":[1],"synthesis":[2],"is":[3,189],"fundamental":[4],"to":[5,31,61,78,104,109,151,170,191,195,255,308],"the":[6,69,92,158,175,193,249,253,301],"chemical":[7,24,128,220,234,334],"industry,":[8],"particularly":[9],"in":[10],"domains":[11],"such":[12],"as":[13],"pharmaceutical":[14],"development.":[15],"While":[16],"artificial":[17],"intelligence":[18],"offers":[19],"powerful":[20,203],"tools":[21],"for":[22,134,278,303],"modeling":[23],"reactions,":[25],"current":[26],"approaches":[27],"are":[28],"primarily":[29],"limited":[30],"two":[32],"paradigms:":[33],"those":[34,42],"that":[35,43,111,239,325],"rely":[36],"on":[37,72,197,225,318],"hand-crafted,":[38],"domain-specific":[39],"features,":[40],"and":[41,97,99,149,182,204,246,257,298,311],"apply":[44],"generic":[45],"deep":[46],"learning":[47,131,223,237],"models":[48,88],"through":[49],"simplistic":[50,84],"concatenation":[51,77],"or":[52,75,106],"aggregation":[53,85],"of":[54,138,161,295,321],"reaction":[55,81,114,129,140,172,221,235,280,335],"components.":[56,82],"The":[57],"former":[58],"often":[59],"struggles":[60],"scale":[62],"effectively":[63],"with":[64],"increasing":[65],"data":[66],"volumes,":[67],"while":[68],"latter":[70],"relies":[71],"simple":[73],"input-":[74],"feature-level":[76],"combine":[79],"different":[80],"Such":[83],"prevents":[86],"these":[87],"from":[89,286],"directly":[90],"capturing":[91],"structural":[93,260],"transformations":[94,261],"between":[95,147,244],"reactants":[96,148,245],"products,":[98],"also":[100,272],"makes":[101],"it":[102],"difficult":[103],"adapt":[105],"extend":[107],"them":[108],"datasets":[110,181,323],"include":[112],"non-molecular":[113],"conditions":[115,173],"without":[116],"modifying":[117],"their":[118],"model":[119,194,213,254,258],"architectures.":[120],"RESULTS:":[121],"This":[122],"paper":[123],"introduces":[124],"AlignReact,":[125],"a":[126,135,185,233,274,319],"novel":[127],"representation":[130,222,236],"framework":[132,238,327],"designed":[133],"wide":[136],"range":[137,320],"organic":[139],"tasks.":[141,183,337],"Our":[142],"approach":[143,271],"integrates":[144,241],"atomic":[145,242],"correspondence":[146,243],"products":[150,247],"discern":[152],"precise":[153],"molecular":[154,162,259],"transformations,":[155],"thereby":[156],"improving":[157],"model's":[159],"comprehension":[160],"transformation":[163],"patterns.":[164],"We":[165,231],"incorporate":[166],"an":[167,265],"adapter":[168,290],"structure":[169],"embed":[171],"into":[174,248],"representation,":[176],"enhancing":[177],"adaptability":[178],"across":[179,208,331],"varied":[180],"Furthermore,":[184],"Reaction-Center-Aware":[186],"attention":[187],"mechanism":[188],"proposed":[190],"enable":[192],"focus":[196],"critical":[198],"functional":[199],"groups,":[200],"yielding":[201],"more":[202],"informative":[205],"representations.":[206],"Evaluated":[207],"multiple":[209],"downstream":[210,322],"tasks,":[211],"our":[212,270,326],"demonstrates":[214],"superior":[215],"performance,":[216],"significantly":[217],"outperforming":[218],"existing":[219],"architectures":[224],"most":[226],"benchmark":[227],"datasets.":[228],"SCIENTIFIC":[229],"CONTRIBUTION:":[230],"introduce":[232],"explicitly":[240],"network":[250],"architecture,":[251],"enabling":[252],"perceive":[256],"during":[262],"reactions.":[263],"As":[264],"extensible":[266],"but":[267],"preliminary":[268],"feature,":[269],"features":[273,294],"flexible,":[275],"detachable":[276],"module":[277,291],"integrating":[279],"conditions.":[281],"Inspired":[282],"by":[283],"conditioning":[284],"mechanisms":[285],"multimodal":[287],"generation,":[288],"this":[289],"accepts":[292],"precomputed":[293],"varying":[296],"dimensions":[297],"modalities,":[299],"laying":[300],"groundwork":[302],"broader":[304],"dataset":[305],"compatibility":[306],"compared":[307],"prior":[309],"work,":[310],"enables":[312],"fine-grained,":[313],"context-aware":[314],"conditioning.":[315],"Extensive":[316],"experiments":[317],"demonstrate":[324],"achieves":[328],"state-of-the-art":[329],"performance":[330],"several":[332],"key":[333],"prediction":[336]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-07-31T08:31:51.225901","created_date":"2024-12-05T00:00:00"}
