{"id":"https://openalex.org/W4310460639","doi":"https://doi.org/10.1109/tcbb.2022.3224836","title":"GRA-GCN: Dense Granule Protein Prediction in Apicomplexa Protozoa Through Graph Convolutional Network","display_name":"GRA-GCN: Dense Granule Protein Prediction in Apicomplexa Protozoa Through Graph Convolutional Network","publication_year":2022,"publication_date":"2022-11-28","ids":{"openalex":"https://openalex.org/W4310460639","doi":"https://doi.org/10.1109/tcbb.2022.3224836","pmid":"https://pubmed.ncbi.nlm.nih.gov/36441896"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2022.3224836","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2022.3224836","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5101994921","display_name":"Haoyuan Shi","orcid":"https://orcid.org/0009-0006-3250-490X"},"institutions":[{"id":"https://openalex.org/I140221134","display_name":"Anhui Agricultural University","ror":"https://ror.org/0327f3359","country_code":"CN","type":"education","lineage":["https://openalex.org/I140221134"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haoyuan Shi","raw_affiliation_strings":["School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I140221134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070728756","display_name":"Haisong Feng","orcid":null},"institutions":[{"id":"https://openalex.org/I140221134","display_name":"Anhui Agricultural University","ror":"https://ror.org/0327f3359","country_code":"CN","type":"education","lineage":["https://openalex.org/I140221134"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haisong Feng","raw_affiliation_strings":["School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I140221134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041154555","display_name":"Zhenxiao Lu","orcid":"https://orcid.org/0000-0003-2549-3297"},"institutions":[{"id":"https://openalex.org/I140221134","display_name":"Anhui Agricultural University","ror":"https://ror.org/0327f3359","country_code":"CN","type":"education","lineage":["https://openalex.org/I140221134"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhenxiao Lu","raw_affiliation_strings":["School of Animal Science and Technology, Anhui Agricultural University, Hefei, Anhui, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Animal Science and Technology, Anhui Agricultural University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I140221134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053779839","display_name":"Wei Xue","orcid":null},"institutions":[{"id":"https://openalex.org/I140221134","display_name":"Anhui Agricultural University","ror":"https://ror.org/0327f3359","country_code":"CN","type":"education","lineage":["https://openalex.org/I140221134"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wei Xue","raw_affiliation_strings":["School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I140221134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034841075","display_name":"Congshan Yang","orcid":"https://orcid.org/0000-0002-8007-8072"},"institutions":[{"id":"https://openalex.org/I140221134","display_name":"Anhui Agricultural University","ror":"https://ror.org/0327f3359","country_code":"CN","type":"education","lineage":["https://openalex.org/I140221134"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Congshan Yang","raw_affiliation_strings":["School of Animal Science and Technology, Anhui Agricultural University, Hefei, Anhui, China"],"raw_orcid":"https://orcid.org/0000-0002-8007-8072","affiliations":[{"raw_affiliation_string":"School of Animal Science and Technology, Anhui Agricultural University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I140221134"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044447237","display_name":"Zhenyu Yue","orcid":"https://orcid.org/0000-0002-9370-2540"},"institutions":[{"id":"https://openalex.org/I140221134","display_name":"Anhui Agricultural University","ror":"https://ror.org/0327f3359","country_code":"CN","type":"education","lineage":["https://openalex.org/I140221134"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhenyu Yue","raw_affiliation_strings":["School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China"],"raw_orcid":"https://orcid.org/0000-0002-9370-2540","affiliations":[{"raw_affiliation_string":"School of Information and Computer, Anhui Agricultural University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I140221134"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I140221134"],"apc_list":null,"apc_paid":null,"fwci":0.3358,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.55085847,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"20","issue":"3","first_page":"1963","last_page":"1970"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9940000176429749,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9940000176429749,"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/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.9799000024795532,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9764000177383423,"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":0.6187176704406738},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5730634927749634},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5477374196052551},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.4853707551956177},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.32872867584228516},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3232605457305908},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3060741424560547},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.27859437465667725}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6187176704406738},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5730634927749634},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5477374196052551},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.4853707551956177},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.32872867584228516},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3232605457305908},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3060741424560547},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.27859437465667725}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001692","descriptor_name":"Biological Transport","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001692","descriptor_name":"Biological Transport","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001692","descriptor_name":"Biological Transport","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006929","descriptor_name":"Hyperaldosteronism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006929","descriptor_name":"Hyperaldosteronism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006929","descriptor_name":"Hyperaldosteronism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2022.3224836","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2022.3224836","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36441896","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36441896","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.44999998807907104,"display_name":"Decent work and economic growth","id":"https://metadata.un.org/sdg/8"}],"awards":[{"id":"https://openalex.org/G6253636927","display_name":null,"funder_award_id":"62102004","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":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":64,"referenced_works":["https://openalex.org/W1491008823","https://openalex.org/W1911888926","https://openalex.org/W1952642745","https://openalex.org/W1966184958","https://openalex.org/W1976526581","https://openalex.org/W1998979050","https://openalex.org/W2015015282","https://openalex.org/W2037843515","https://openalex.org/W2041008969","https://openalex.org/W2073770803","https://openalex.org/W2074190759","https://openalex.org/W2074406564","https://openalex.org/W2095705004","https://openalex.org/W2110204377","https://openalex.org/W2116341502","https://openalex.org/W2122576958","https://openalex.org/W2533800772","https://openalex.org/W2736251917","https://openalex.org/W2759742634","https://openalex.org/W2782190837","https://openalex.org/W2803148609","https://openalex.org/W2878629071","https://openalex.org/W2888660454","https://openalex.org/W2889329405","https://openalex.org/W2896447534","https://openalex.org/W2899153154","https://openalex.org/W2932164846","https://openalex.org/W2937274663","https://openalex.org/W2943935116","https://openalex.org/W2947612926","https://openalex.org/W2950685900","https://openalex.org/W2951934944","https://openalex.org/W2959019559","https://openalex.org/W2964015378","https://openalex.org/W2964121744","https://openalex.org/W2964206522","https://openalex.org/W2964321699","https://openalex.org/W2967109100","https://openalex.org/W2967960129","https://openalex.org/W2972935357","https://openalex.org/W2991321419","https://openalex.org/W3033419875","https://openalex.org/W3036113590","https://openalex.org/W3036407082","https://openalex.org/W3038114454","https://openalex.org/W3039075121","https://openalex.org/W3047995329","https://openalex.org/W3100993589","https://openalex.org/W3130891725","https://openalex.org/W3153447574","https://openalex.org/W3159261411","https://openalex.org/W3164046276","https://openalex.org/W3167718630","https://openalex.org/W3187046408","https://openalex.org/W3204911789","https://openalex.org/W4205114576","https://openalex.org/W4205272967","https://openalex.org/W4205434009","https://openalex.org/W4283265475","https://openalex.org/W4288372760","https://openalex.org/W4297258020","https://openalex.org/W6674330103","https://openalex.org/W6720006811","https://openalex.org/W6726873649"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W3046775127","https://openalex.org/W3107602296","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W4313488044","https://openalex.org/W3209574120","https://openalex.org/W4312192474","https://openalex.org/W4210805261"],"abstract_inverted_index":{"Dense":[0],"granule":[1],"proteins":[2],"(GRAs)":[3],"are":[4,10],"secreted":[5],"by":[6,124],"Apicomplexa":[7],"protozoa,":[8],"which":[9],"closely":[11],"related":[12],"to":[13,98,116,136,168],"an":[14,24,51],"extensive":[15],"variety":[16],"of":[17,31,59,78,148,171,186],"farm":[18],"animal":[19],"diseases.":[20,33],"Predicting":[21],"GRAs":[22,56,83,121],"is":[23,39,45,58,112,134],"integral":[25],"part":[26],"in":[27],"prevention":[28],"and":[29,41,133,142,153,165],"treatment":[30],"parasitic":[32],"Considering":[34],"that":[35],"biological":[36],"experiment":[37,151],"approach":[38,119],"time-consuming":[40],"labor-intensive,":[42],"computational":[43,53,68,118],"method":[44,54,69,129],"a":[46,66,89,154,177],"superior":[47,135],"choice.":[48],"Hence,":[49],"developing":[50],"effective":[52],"for":[55,103,120,161,182],"prediction":[57,84,170],"urgency.":[60],"In":[61,76],"this":[62,111],"paper,":[63],"we":[64,174],"present":[65],"novel":[67],"named":[70],"GRA-GCN":[71,93,128],"through":[72],"graph":[73,80,102],"convolutional":[74],"network.":[75],"terms":[77],"the":[79,82,100,113,127,149,184],"theory,":[81],"can":[85],"be":[86],"regarded":[87],"as":[88],"node":[90],"classification":[91],"task.":[92],"leverages":[94],"k-nearest":[95],"neighbor":[96],"algorithm":[97],"construct":[99],"feature":[101],"aggregating":[104],"more":[105],"informative":[106],"representation.":[107],"To":[108],"our":[109,188],"knowledge,":[110],"first":[114],"attempt":[115],"utilize":[117],"prediction.":[122],"Evaluated":[123],"5-fold":[125],"cross-validations,":[126],"achieves":[130],"satisfactory":[131],"performance,":[132],"four":[137],"classic":[138],"machine":[139],"learning-based":[140],"methods":[141],"three":[143],"state-of-the-art":[144],"models.":[145],"The":[146],"analysis":[147],"comprehensive":[150],"results":[152],"case":[155],"study":[156],"could":[157],"offer":[158],"valuable":[159],"information":[160],"understanding":[162],"complex":[163],"mechanisms,":[164],"would":[166],"contribute":[167],"accurate":[169],"GRAs.":[172],"Moreover,":[173],"also":[175],"implement":[176],"web":[178],"server":[179],"at":[180],"http://dgpd.tlds.cc/GRAGCN/index/,":[181],"facilitating":[183],"process":[185],"using":[187],"model.":[189]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
