{"id":"https://openalex.org/W4205092210","doi":"https://doi.org/10.1109/bibm52615.2021.9669396","title":"GraphIsoFun: a graph neural network based approach for splice isoform function prediction","display_name":"GraphIsoFun: a graph neural network based approach for splice isoform function prediction","publication_year":2021,"publication_date":"2021-12-09","ids":{"openalex":"https://openalex.org/W4205092210","doi":"https://doi.org/10.1109/bibm52615.2021.9669396"},"language":"en","primary_location":{"id":"doi:10.1109/bibm52615.2021.9669396","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm52615.2021.9669396","pdf_url":null,"source":{"id":"https://openalex.org/S4363607735","display_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","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/A5100450352","display_name":"Shuo Zhang","orcid":"https://orcid.org/0000-0001-9497-6263"},"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":true,"raw_author_name":"Shuo Zhang","raw_affiliation_strings":["Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","School of Computer Science and Engineering, Central South University, Changsha, China, Hunan"],"affiliations":[{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002077431","display_name":"Changhuo Yang","orcid":null},"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":"Changhuo Yang","raw_affiliation_strings":["Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","School of Computer Science and Engineering, Central South University, Changsha, China, Hunan"],"affiliations":[{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101819060","display_name":"Hong\u2010Dong Li","orcid":null},"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":"Hong-Dong Li","raw_affiliation_strings":["Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","School of Computer Science and Engineering, Central South University, Changsha, China, Hunan"],"affiliations":[{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100438360","display_name":"Jianxin Wang","orcid":"https://orcid.org/0000-0003-1516-0480"},"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":"Jianxin Wang","raw_affiliation_strings":["Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","School of Computer Science and Engineering, Central South University, Changsha, China, Hunan"],"affiliations":[{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China, Hunan","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5100450352"],"corresponding_institution_ids":["https://openalex.org/I139660479"],"apc_list":null,"apc_paid":null,"fwci":0.5188,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.55111524,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"49","issue":null,"first_page":"112","last_page":"117"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.9998000264167786,"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/T10604","display_name":"RNA Research and Splicing","score":0.9998000264167786,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9984999895095825,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9968000054359436,"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/gene-isoform","display_name":"Gene isoform","score":0.8673628568649292},{"id":"https://openalex.org/keywords/alternative-splicing","display_name":"Alternative splicing","score":0.7624212503433228},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.629560649394989},{"id":"https://openalex.org/keywords/splice","display_name":"splice","score":0.6063218116760254},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5134742856025696},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5008699893951416},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.45323657989501953},{"id":"https://openalex.org/keywords/rna-splicing","display_name":"RNA splicing","score":0.44420263171195984},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.42176300287246704},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4201776087284088},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.39127397537231445},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2703639566898346},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2585069537162781},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.25828397274017334}],"concepts":[{"id":"https://openalex.org/C53345823","wikidata":"https://www.wikidata.org/wiki/Q5531554","display_name":"Gene isoform","level":3,"score":0.8673628568649292},{"id":"https://openalex.org/C194583182","wikidata":"https://www.wikidata.org/wiki/Q21114084","display_name":"Alternative splicing","level":4,"score":0.7624212503433228},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.629560649394989},{"id":"https://openalex.org/C2780989783","wikidata":"https://www.wikidata.org/wiki/Q7578557","display_name":"splice","level":3,"score":0.6063218116760254},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5134742856025696},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5008699893951416},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.45323657989501953},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.44420263171195984},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.42176300287246704},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4201776087284088},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.39127397537231445},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2703639566898346},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2585069537162781},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.25828397274017334},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm52615.2021.9669396","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm52615.2021.9669396","pdf_url":null,"source":{"id":"https://openalex.org/S4363607735","display_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6200000047683716,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W1568341953","https://openalex.org/W1718065612","https://openalex.org/W1784654175","https://openalex.org/W1883773314","https://openalex.org/W2003605043","https://openalex.org/W2009329319","https://openalex.org/W2010012966","https://openalex.org/W2018608365","https://openalex.org/W2027898937","https://openalex.org/W2041399050","https://openalex.org/W2052931181","https://openalex.org/W2103017472","https://openalex.org/W2110119381","https://openalex.org/W2131456688","https://openalex.org/W2559588208","https://openalex.org/W2743273864","https://openalex.org/W2792504918","https://openalex.org/W2904341255","https://openalex.org/W2951282333","https://openalex.org/W2954055267","https://openalex.org/W2956050535","https://openalex.org/W2964015378","https://openalex.org/W2988426147","https://openalex.org/W3042475334","https://openalex.org/W3089154911","https://openalex.org/W3112600195","https://openalex.org/W3184957809","https://openalex.org/W4288419263","https://openalex.org/W6726873649","https://openalex.org/W6742680475","https://openalex.org/W6760045743","https://openalex.org/W6770234899"],"related_works":["https://openalex.org/W2001319824","https://openalex.org/W2067501355","https://openalex.org/W2008389025","https://openalex.org/W1943031701","https://openalex.org/W2136950317","https://openalex.org/W2904939684","https://openalex.org/W2321791250","https://openalex.org/W4213427798","https://openalex.org/W2012312817","https://openalex.org/W2081598294"],"abstract_inverted_index":{"Alternative":[0],"splicing":[1,70],"has":[2,28],"a":[3,90,113,136],"significant":[4],"impact":[5],"in":[6],"the":[7,16,25,44,48,67,127,147,153,156,161],"process":[8],"of":[9,18,38,51,69,83,155,165],"gene":[10,26,39,101,142],"regulation":[11],"and":[12,21,32,47,102,120,132,134,141,159],"it":[13,53],"greatly":[14],"raises":[15],"complexity":[17],"protein":[19],"species":[20],"functions.":[22,64,143],"At":[23],"present,":[24],"function":[27,40,97],"been":[29],"extensively":[30],"studied,":[31],"there":[33],"are":[34],"multiple":[35,173],"public":[36],"databases":[37],"annotations.":[41],"Due":[42],"to":[43,57,80,94,151],"high":[45],"cost":[46],"large":[49],"number":[50],"isoforms,":[52],"is":[54],"currently":[55],"impossible":[56],"conduct":[58],"extensive":[59],"experimental":[60],"analysis":[61],"on":[62,172,182],"isoform":[63,96,140],"Functions":[65],"at":[66],"level":[68],"isoforms":[71,121,131,166],"remain":[72],"largely":[73],"unknown.":[74],"Computational":[75],"prediction":[76,163],"provides":[77,135],"an":[78],"alternative":[79],"functional":[81],"annotation":[82],"splice":[84],"isoforms.":[85],"Here":[86],"we":[87],"present":[88],"GraphIsoFun,":[89],"novel":[91],"computational":[92],"approach":[93],"predict":[95],"by":[98],"integrating":[99],"both":[100,118],"isoform-level":[103],"expression":[104],"information":[105,154],"with":[106,117],"graph":[107,148],"neural":[108,149],"network.":[109],"It":[110],"first":[111],"constructs":[112],"heterogeneous":[114],"co-expression":[115,157],"network":[116,125,150,158],"genes":[119],"being":[122],"nodes.":[123],"This":[124],"integrates":[126],"rich":[128],"association":[129],"between":[130],"genes,":[133],"bridge":[137],"for":[138,167],"connecting":[139],"Then":[144],"GraphIsoFun":[145,177],"uses":[146],"mine":[152],"obtains":[160],"final":[162],"score":[164],"each":[168],"function.":[169],"The":[170],"experiments":[171],"datasets":[174],"show":[175],"that":[176],"surpasses":[178],"existing":[179],"methods":[180],"based":[181],"different":[183],"evaluation":[184],"indicators.":[185]},"counts_by_year":[{"year":2024,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}