{"id":"https://openalex.org/W4406238088","doi":"https://doi.org/10.1109/bibm62325.2024.10822862","title":"spGCLF: a versatile deep graph contrastive learning framework for spatial transcriptomics analysis","display_name":"spGCLF: a versatile deep graph contrastive learning framework for spatial transcriptomics analysis","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406238088","doi":"https://doi.org/10.1109/bibm62325.2024.10822862"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822862","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822862","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/A5100441917","display_name":"Xiang Chen","orcid":"https://orcid.org/0000-0002-2499-8261"},"institutions":[{"id":"https://openalex.org/I121296143","display_name":"Hunan University of Science and Technology","ror":"https://ror.org/02m9vrb24","country_code":"CN","type":"education","lineage":["https://openalex.org/I121296143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiang Chen","raw_affiliation_strings":["Hunan University of Science and Technology,School of Computer Science and Engineering,Xiangtan,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hunan University of Science and Technology,School of Computer Science and Engineering,Xiangtan,China","institution_ids":["https://openalex.org/I121296143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101293688","display_name":"Junnan Yu","orcid":"https://orcid.org/0009-0006-2042-1891"},"institutions":[{"id":"https://openalex.org/I121296143","display_name":"Hunan University of Science and Technology","ror":"https://ror.org/02m9vrb24","country_code":"CN","type":"education","lineage":["https://openalex.org/I121296143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junnan Yu","raw_affiliation_strings":["Hunan University of Science and Technology,School of Computer Science and Engineering,Xiangtan,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Hunan University of Science and Technology,School of Computer Science and Engineering,Xiangtan,China","institution_ids":["https://openalex.org/I121296143"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100719013","display_name":"Min Li","orcid":"https://orcid.org/0000-0002-0188-1394"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Min Li","raw_affiliation_strings":["Central South University,School of Computer Science and Engineering,Changsha,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Central South University,School of Computer Science and Engineering,Changsha,China","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"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":"497","last_page":"502"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9930999875068665,"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":0.9930999875068665,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9805999994277954,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9176999926567078,"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":0.7801727056503296},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5063875913619995},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4538681209087372},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.35402536392211914},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.24603694677352905}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7801727056503296},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5063875913619995},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4538681209087372},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.35402536392211914},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.24603694677352905}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822862","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822862","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"},{"id":"https://openalex.org/F4320329860","display_name":"National Science and Technology Major Project","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W2143236113","https://openalex.org/W2800392236","https://openalex.org/W2809368942","https://openalex.org/W2915848182","https://openalex.org/W2949177718","https://openalex.org/W2950372712","https://openalex.org/W3036371598","https://openalex.org/W3108118546","https://openalex.org/W3126958162","https://openalex.org/W3134482219","https://openalex.org/W3203689742","https://openalex.org/W4226192560","https://openalex.org/W4229033508","https://openalex.org/W4294042823","https://openalex.org/W4320024114","https://openalex.org/W4322183386","https://openalex.org/W4390814844","https://openalex.org/W4390991971","https://openalex.org/W6726873649","https://openalex.org/W6771932116","https://openalex.org/W6779238151"],"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/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W3204019825"],"abstract_inverted_index":{"The":[0],"rapid":[1],"development":[2],"of":[3,11,76],"spatial":[4,12,24,33,57,104],"transcriptomics":[5],"(ST)":[6],"has":[7],"revolutionized":[8],"the":[9,16,74],"study":[10],"heterogeneity":[13],"and":[14,43,84,111],"increased":[15],"demand":[17],"for":[18,29,40,56,103],"comprehensive":[19],"methods":[20],"to":[21,67],"effectively":[22,68],"characterize":[23],"domains.":[25],"As":[26],"a":[27,37,49],"prerequisite":[28],"ST":[30,93],"data":[31],"analysis,":[32],"domain":[34,105],"characterization":[35],"is":[36,101],"critical":[38],"step":[39],"downstream":[41],"analysis":[42],"biological":[44],"interpretation.":[45],"Here,":[46],"we":[47],"propose":[48],"deep":[50],"graph":[51,64],"contrastive":[52,61],"learning":[53,62],"framework":[54],"(spG-CLF)":[55],"transcriptomics,":[58],"which":[59],"leverages":[60],"through":[63],"convolutional":[65],"networks":[66],"learn":[69],"features":[70],"among":[71],"spots,":[72],"addressing":[73],"issue":[75],"poor":[77],"cross-platform":[78],"generalizability.":[79],"By":[80],"alternately":[81],"performing":[82],"attribute":[83],"topological":[85],"denoising,":[86],"our":[87],"method":[88],"specifically":[89],"reduces":[90],"noise":[91],"in":[92],"data.":[94],"We":[95],"demonstrate":[96],"that":[97],"s":[98],"p":[99],"GCLF":[100],"effective":[102],"identification,":[106],"trajectory":[107],"inference,":[108],"multi-slice":[109],"integration,":[110],"type":[112],"annotation.":[113]},"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
