{"id":"https://openalex.org/W7155031964","doi":"https://doi.org/10.48550/arxiv.2604.16776","title":"SAVE: A Generalizable Framework for Multi-Condition Single-Cell Generation with Gene Block Attention","display_name":"SAVE: A Generalizable Framework for Multi-Condition Single-Cell Generation with Gene Block Attention","publication_year":2026,"publication_date":"2026-04-18","ids":{"openalex":"https://openalex.org/W7155031964","doi":"https://doi.org/10.48550/arxiv.2604.16776"},"language":null,"primary_location":{"id":"doi:10.48550/arxiv.2604.16776","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2604.16776","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"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","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Preprint"},"type":"preprint","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.48550/arxiv.2604.16776","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5134200168","display_name":"Jiahao Li","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Li, Jiahao","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134145747","display_name":"Jiayi Dong","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Dong, Jiayi","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134172622","display_name":"Peng Ye","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ye, Peng","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134195970","display_name":"Xiaochi Zhou","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Zhou, Xiaochi","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089947130","display_name":"\u9646\u6d69\u6d77","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Lu, Haohai","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5134158478","display_name":"Fei Wang","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Wang, Fei","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.8535000085830688,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.8535000085830688,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.04610000178217888,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.007899999618530273,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/fidelity","display_name":"Fidelity","score":0.6051999926567078},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.5741000175476074},{"id":"https://openalex.org/keywords/generalization","display_name":"Generalization","score":0.4124999940395355},{"id":"https://openalex.org/keywords/generative-model","display_name":"Generative model","score":0.40369999408721924},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.39879998564720154},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.3986999988555908},{"id":"https://openalex.org/keywords/generative-grammar","display_name":"Generative grammar","score":0.391400009393692},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.36980000138282776}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7095999717712402},{"id":"https://openalex.org/C2776459999","wikidata":"https://www.wikidata.org/wiki/Q2119376","display_name":"Fidelity","level":2,"score":0.6051999926567078},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.5741000175476074},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.47530001401901245},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4634000062942505},{"id":"https://openalex.org/C177148314","wikidata":"https://www.wikidata.org/wiki/Q170084","display_name":"Generalization","level":2,"score":0.4124999940395355},{"id":"https://openalex.org/C167966045","wikidata":"https://www.wikidata.org/wiki/Q5532625","display_name":"Generative model","level":3,"score":0.40369999408721924},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.39879998564720154},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.3986999988555908},{"id":"https://openalex.org/C39890363","wikidata":"https://www.wikidata.org/wiki/Q36108","display_name":"Generative grammar","level":2,"score":0.391400009393692},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.36980000138282776},{"id":"https://openalex.org/C66322947","wikidata":"https://www.wikidata.org/wiki/Q11658","display_name":"Transformer","level":3,"score":0.3440000116825104},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.3409999907016754},{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.3188000023365021},{"id":"https://openalex.org/C2777210771","wikidata":"https://www.wikidata.org/wiki/Q4927124","display_name":"Block (permutation group theory)","level":2,"score":0.31150001287460327},{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.3107999861240387},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.29170000553131104},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.28940001130104065},{"id":"https://openalex.org/C113364801","wikidata":"https://www.wikidata.org/wiki/Q26674","display_name":"High fidelity","level":2,"score":0.2858000099658966},{"id":"https://openalex.org/C63000827","wikidata":"https://www.wikidata.org/wiki/Q3080428","display_name":"Software portability","level":2,"score":0.2671000063419342},{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.2563000023365021},{"id":"https://openalex.org/C2991772755","wikidata":"https://www.wikidata.org/wiki/Q751748","display_name":"Gene interaction","level":3,"score":0.25110000371932983}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.48550/arxiv.2604.16776","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2604.16776","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"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","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Preprint"}],"best_oa_location":{"id":"doi:10.48550/arxiv.2604.16776","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2604.16776","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"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","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Preprint"},"sustainable_development_goals":[{"display_name":"No poverty","score":0.6258143186569214,"id":"https://metadata.un.org/sdg/1"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"Modeling":[0],"single-cell":[1,51,135],"gene":[2,69],"expression":[3],"across":[4],"diverse":[5],"biological":[6,31,145],"and":[7,16,33,75,82,103,114,129,144],"technical":[8],"conditions":[9],"is":[10,149],"crucial":[11],"for":[12,49,132],"characterizing":[13],"cellular":[14],"states":[15],"simulating":[17],"unseen":[18,86],"scenarios.":[19],"Existing":[20],"methods":[21,110],"often":[22],"treat":[23],"genes":[24,62],"as":[25],"independent":[26],"tokens,":[27],"overlooking":[28],"their":[29],"high-level":[30],"relationships":[32],"leading":[34],"to":[35,85],"poor":[36],"performance.":[37],"We":[38,89],"introduce":[39],"SAVE,":[40],"a":[41,55,93,127],"unified":[42],"generative":[43],"framework":[44],"based":[45],"on":[46,92],"conditional":[47,98],"Transformers":[48],"multi-condition":[50],"modeling.":[52],"SAVE":[53,91,106,125],"leverages":[54],"coarse-grained":[56],"representation":[57],"by":[58],"grouping":[59],"semantically":[60],"related":[61],"into":[63],"blocks,":[64],"capturing":[65],"higher-order":[66],"dependencies":[67],"among":[68],"modules.":[70],"A":[71],"Flow":[72],"Matching":[73],"mechanism":[74],"condition-masking":[76],"strategy":[77],"further":[78],"enhance":[79],"flexible":[80],"simulation":[81],"enable":[83],"generalization":[84],"condition":[87],"combinations.":[88],"evaluate":[90],"range":[94],"of":[95],"benchmarks,":[96],"including":[97],"generation,":[99],"batch":[100],"effect":[101],"correction,":[102],"perturbation":[104],"prediction.":[105],"consistently":[107],"outperforms":[108],"state-of-the-art":[109],"in":[111,118,140],"generation":[112],"fidelity":[113],"extrapolative":[115],"generalization,":[116],"especially":[117],"low-resource":[119],"or":[120],"combinatorially":[121],"held-out":[122],"settings.":[123],"Overall,":[124],"offers":[126],"scalable":[128],"generalizable":[130],"solution":[131],"modeling":[133],"complex":[134],"data,":[136],"with":[137],"broad":[138],"utility":[139],"virtual":[141],"cell":[142],"synthesis":[143],"interpretation.":[146],"Our":[147],"code":[148],"publicly":[150],"available":[151],"at":[152],"https://github.com/fdu-wangfeilab/sc-save":[153]},"counts_by_year":[],"updated_date":"2026-07-01T06:00:48.157686","created_date":"2026-04-22T00:00:00"}