{"id":"https://openalex.org/W4406238295","doi":"https://doi.org/10.1109/bibm62325.2024.10822627","title":"Masked Conditional Diffusion Model with GNN for Spatial Transcriptomics Data Imputation","display_name":"Masked Conditional Diffusion Model with GNN for Spatial Transcriptomics Data Imputation","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406238295","doi":"https://doi.org/10.1109/bibm62325.2024.10822627"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822627","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822627","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"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/A5012875010","display_name":"X Rong Li","orcid":"https://orcid.org/0000-0002-6538-5648"},"institutions":[{"id":"https://openalex.org/I189210763","display_name":"Yunnan University","ror":"https://ror.org/0040axw97","country_code":"CN","type":"education","lineage":["https://openalex.org/I189210763"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoyu Li","raw_affiliation_strings":["Yunnan University,School of Information Science and Engineering,Kunming,China,650500"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Yunnan University,School of Information Science and Engineering,Kunming,China,650500","institution_ids":["https://openalex.org/I189210763"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083513047","display_name":"Wenwen Min","orcid":"https://orcid.org/0000-0002-2558-2911"},"institutions":[{"id":"https://openalex.org/I189210763","display_name":"Yunnan University","ror":"https://ror.org/0040axw97","country_code":"CN","type":"education","lineage":["https://openalex.org/I189210763"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenwen Min","raw_affiliation_strings":["Yunnan University,School of Information Science and Engineering,Kunming,China,650500"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Yunnan University,School of Information Science and Engineering,Kunming,China,650500","institution_ids":["https://openalex.org/I189210763"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040105964","display_name":"Shunfang Wang","orcid":"https://orcid.org/0000-0002-1927-8753"},"institutions":[{"id":"https://openalex.org/I189210763","display_name":"Yunnan University","ror":"https://ror.org/0040axw97","country_code":"CN","type":"education","lineage":["https://openalex.org/I189210763"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shunfang Wang","raw_affiliation_strings":["Yunnan University,School of Information Science and Engineering,Kunming,China,650500"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Yunnan University,School of Information Science and Engineering,Kunming,China,650500","institution_ids":["https://openalex.org/I189210763"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063406130","display_name":"Changmiao Wang","orcid":"https://orcid.org/0000-0003-2466-5990"},"institutions":[{"id":"https://openalex.org/I4210099586","display_name":"Shenzhen Research Institute of Big Data","ror":"https://ror.org/00z1gwf89","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210099586"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Changmiao Wang","raw_affiliation_strings":["The Shenzhen Research Institute of Big Data,Shenzhen,China,518172"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Shenzhen Research Institute of Big Data,Shenzhen,China,518172","institution_ids":["https://openalex.org/I4210099586"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071137947","display_name":"Taosheng Xu","orcid":"https://orcid.org/0000-0001-8283-7274"},"institutions":[{"id":"https://openalex.org/I2802624667","display_name":"Hefei Institutes of Physical Science","ror":"https://ror.org/046n57345","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I2802624667"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Taosheng Xu","raw_affiliation_strings":["Chinese Academy of Science,The Hefei Institutes of Physical Science,Hefei,China,230031"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chinese Academy of Science,The Hefei Institutes of Physical Science,Hefei,China,230031","institution_ids":["https://openalex.org/I2802624667"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"2164","last_page":"2169"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.939300000667572,"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/T10885","display_name":"Gene expression and cancer classification","score":0.939300000667572,"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/computer-science","display_name":"Computer science","score":0.6514646410942078},{"id":"https://openalex.org/keywords/imputation","display_name":"Imputation (statistics)","score":0.6368929147720337},{"id":"https://openalex.org/keywords/data-modeling","display_name":"Data modeling","score":0.49133697152137756},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.41513872146606445},{"id":"https://openalex.org/keywords/missing-data","display_name":"Missing data","score":0.15358251333236694},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.14882108569145203},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.10146433115005493}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6514646410942078},{"id":"https://openalex.org/C58041806","wikidata":"https://www.wikidata.org/wiki/Q1660484","display_name":"Imputation (statistics)","level":3,"score":0.6368929147720337},{"id":"https://openalex.org/C67186912","wikidata":"https://www.wikidata.org/wiki/Q367664","display_name":"Data modeling","level":2,"score":0.49133697152137756},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.41513872146606445},{"id":"https://openalex.org/C9357733","wikidata":"https://www.wikidata.org/wiki/Q6878417","display_name":"Missing data","level":2,"score":0.15358251333236694},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.14882108569145203},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.10146433115005493}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822627","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822627","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"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":28,"referenced_works":["https://openalex.org/W2792693509","https://openalex.org/W2898718502","https://openalex.org/W2901677030","https://openalex.org/W2951381561","https://openalex.org/W2962932373","https://openalex.org/W3087138957","https://openalex.org/W3112563877","https://openalex.org/W3120427588","https://openalex.org/W3138479716","https://openalex.org/W3140605903","https://openalex.org/W3182503854","https://openalex.org/W3208940117","https://openalex.org/W3210982033","https://openalex.org/W4220765701","https://openalex.org/W4226192560","https://openalex.org/W4229033508","https://openalex.org/W4280533477","https://openalex.org/W4290876361","https://openalex.org/W4300862018","https://openalex.org/W4313156423","https://openalex.org/W4361799767","https://openalex.org/W4386306185","https://openalex.org/W4389135772","https://openalex.org/W4403853489","https://openalex.org/W4404122385","https://openalex.org/W6779823529","https://openalex.org/W6799025473","https://openalex.org/W6846528939"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4211215373","https://openalex.org/W4396701345","https://openalex.org/W3217094455","https://openalex.org/W2376932109"],"abstract_inverted_index":{"Spatially":[0],"resolved":[1],"transcriptomics":[2,110,171],"represents":[3],"a":[4,29,45,103,115,136],"significant":[5],"advancement":[6],"in":[7,158],"single-cell":[8],"analysis":[9],"by":[10,44],"offering":[11],"both":[12],"gene":[13,67],"expression":[14,68],"data":[15,36,69,89,98,111,122,129],"and":[16],"their":[17],"corresponding":[18],"physical":[19],"locations.":[20],"However,":[21],"this":[22],"high":[23,46],"degree":[24],"of":[25,48,176],"spatial":[26,34,59,83,87,109,142,170],"resolution":[27],"entails":[28],"drawback,":[30],"as":[31,124,131],"the":[32,38,58,65,82,96,127,141,174],"resulting":[33],"transcriptomic":[35,88],"at":[37,188],"cellular":[39],"level":[40],"is":[41,78],"notably":[42],"plagued":[43],"incidence":[47],"missing":[49,92],"values.":[50],"Furthermore,":[51],"most":[52],"existing":[53,181],"imputation":[54],"methods":[55,178],"either":[56],"overlook":[57],"information":[60,85],"between":[61],"spots":[62],"or":[63],"compromise":[64],"overall":[66,97],"distribution.":[70,99],"To":[71],"address":[72],"these":[73],"challenges,":[74],"our":[75,153,177],"primary":[76],"focus":[77],"on":[79,162],"effectively":[80],"utilizing":[81],"location":[84],"within":[86],"to":[90,139,180],"impute":[91],"values,":[93],"while":[94],"preserving":[95],"We":[100],"introduce":[101],"stMCDI,":[102],"masked":[104,121],"conditional":[105],"diffusion":[106],"model":[107,147,154],"for":[108],"imputation,":[112],"which":[113],"employs":[114],"denoising":[116],"network":[117],"trained":[118],"using":[119],"randomly":[120],"portions":[123],"guidance,":[125],"with":[126,150],"unmasked":[128],"serving":[130],"conditions.":[132],"Additionally,":[133],"it":[134],"utilizes":[135],"GNN":[137],"encoder":[138],"integrate":[140],"position":[143],"information,":[144],"thereby":[145],"enhancing":[146],"performance.":[148],"Compared":[149],"baseline":[151],"methods,":[152],"achieves":[155],"state-of-the-art":[156],"performance":[157,175],"all":[159],"evaluation":[160],"metrics":[161],"six":[163],"real-world":[164],"datasets.":[165],"The":[166],"results":[167],"obtained":[168],"from":[169],"datasets":[172],"elucidate":[173],"relative":[179],"approaches.":[182],"Our":[183],"code":[184],"can":[185],"be":[186],"accessed":[187],"https://github.com/wenwenmin/stMCDI.":[189]},"counts_by_year":[{"year":2025,"cited_by_count":5}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
