{"id":"https://openalex.org/W2967622153","doi":"https://doi.org/10.1109/cibcb.2019.8791487","title":"LErNet: characterization of lncRNAs via context-aware network expansion and enrichment analysis","display_name":"LErNet: characterization of lncRNAs via context-aware network expansion and enrichment analysis","publication_year":2019,"publication_date":"2019-07-01","ids":{"openalex":"https://openalex.org/W2967622153","doi":"https://doi.org/10.1109/cibcb.2019.8791487","mag":"2967622153"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb.2019.8791487","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2019.8791487","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","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/A5058658234","display_name":"Vincenzo Bonnici","orcid":"https://orcid.org/0000-0002-1637-7545"},"institutions":[{"id":"https://openalex.org/I119439378","display_name":"University of Verona","ror":"https://ror.org/039bp8j42","country_code":"IT","type":"education","lineage":["https://openalex.org/I119439378"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Vincenzo Bonnici","raw_affiliation_strings":["Department of Computer Science, University of Verona, Verona, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Verona, Verona, Italy","institution_ids":["https://openalex.org/I119439378"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014142539","display_name":"Simone Caligola","orcid":"https://orcid.org/0000-0002-9829-9527"},"institutions":[{"id":"https://openalex.org/I119439378","display_name":"University of Verona","ror":"https://ror.org/039bp8j42","country_code":"IT","type":"education","lineage":["https://openalex.org/I119439378"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Simone Caligola","raw_affiliation_strings":["Department of Computer Science, University of Verona, Verona, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Verona, Verona, Italy","institution_ids":["https://openalex.org/I119439378"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112461050","display_name":"Giulia Fiorini","orcid":null},"institutions":[{"id":"https://openalex.org/I119439378","display_name":"University of Verona","ror":"https://ror.org/039bp8j42","country_code":"IT","type":"education","lineage":["https://openalex.org/I119439378"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giulia Fiorini","raw_affiliation_strings":["Department of Computer Science, University of Verona, Verona, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Verona, Verona, Italy","institution_ids":["https://openalex.org/I119439378"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022215099","display_name":"Luca Giudice","orcid":"https://orcid.org/0000-0003-0593-4067"},"institutions":[{"id":"https://openalex.org/I119439378","display_name":"University of Verona","ror":"https://ror.org/039bp8j42","country_code":"IT","type":"education","lineage":["https://openalex.org/I119439378"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Luca Giudice","raw_affiliation_strings":["Department of Computer Science, University of Verona, Verona, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Verona, Verona, Italy","institution_ids":["https://openalex.org/I119439378"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002057785","display_name":"Rosalba Giugno","orcid":"https://orcid.org/0000-0001-9843-7638"},"institutions":[{"id":"https://openalex.org/I119439378","display_name":"University of Verona","ror":"https://ror.org/039bp8j42","country_code":"IT","type":"education","lineage":["https://openalex.org/I119439378"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Rosalba Giugno","raw_affiliation_strings":["Department of Computer Science, University of Verona, Verona, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Verona, Verona, Italy","institution_ids":["https://openalex.org/I119439378"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.10012927,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"17","issue":null,"first_page":"1","last_page":"8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11482","display_name":"RNA modifications and cancer","score":0.9916999936103821,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9879000186920166,"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":0.7611401081085205},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.6900721788406372},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5606769323348999},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5593744516372681},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.5406015515327454},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48121169209480286},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.4701941907405853},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.4364728629589081},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.33135342597961426},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.24372103810310364},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1919410526752472},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1211729645729065},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.09878847002983093}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7611401081085205},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.6900721788406372},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5606769323348999},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5593744516372681},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.5406015515327454},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48121169209480286},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.4701941907405853},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4364728629589081},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.33135342597961426},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.24372103810310364},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1919410526752472},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1211729645729065},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.09878847002983093},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cibcb.2019.8791487","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2019.8791487","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education","score":0.4000000059604645}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":42,"referenced_works":["https://openalex.org/W1929627202","https://openalex.org/W1932053236","https://openalex.org/W1976149758","https://openalex.org/W1989277387","https://openalex.org/W2018045523","https://openalex.org/W2022232407","https://openalex.org/W2036615809","https://openalex.org/W2058192799","https://openalex.org/W2062533676","https://openalex.org/W2067622131","https://openalex.org/W2096465161","https://openalex.org/W2110065044","https://openalex.org/W2110553827","https://openalex.org/W2125118217","https://openalex.org/W2140099276","https://openalex.org/W2143642267","https://openalex.org/W2144140472","https://openalex.org/W2155747698","https://openalex.org/W2156695919","https://openalex.org/W2159482845","https://openalex.org/W2162801723","https://openalex.org/W2165428492","https://openalex.org/W2166574880","https://openalex.org/W2171662214","https://openalex.org/W2172557341","https://openalex.org/W2174632898","https://openalex.org/W2378703660","https://openalex.org/W2489728537","https://openalex.org/W2537623931","https://openalex.org/W2571489439","https://openalex.org/W2618612478","https://openalex.org/W2741769474","https://openalex.org/W2768885548","https://openalex.org/W2803502267","https://openalex.org/W2804501929","https://openalex.org/W2806349375","https://openalex.org/W2809956947","https://openalex.org/W2886890299","https://openalex.org/W2887958142","https://openalex.org/W4233698560","https://openalex.org/W4294216483","https://openalex.org/W6728998201"],"related_works":["https://openalex.org/W3129816939","https://openalex.org/W2912862995","https://openalex.org/W2985427592","https://openalex.org/W2101501829","https://openalex.org/W2400569965","https://openalex.org/W2060263731","https://openalex.org/W2003194288","https://openalex.org/W391093122","https://openalex.org/W1521239975","https://openalex.org/W4361305867"],"abstract_inverted_index":{"Long":[0],"non-coding":[1,74],"RNAs":[2],"(lncRNAs)":[3],"have":[4],"recently":[5],"acquired":[6],"a":[7,29,47],"boost":[8],"of":[9,20,39,43,56,92,105,118],"interest":[10],"for":[11],"their":[12],"implication":[13],"in":[14,32,87,111,116],"several":[15],"biological":[16],"conditions.":[17],"However,":[18],"many":[19],"these":[21],"elements":[22,75],"are":[23,69,95],"not":[24,96],"yet":[25,97],"characterized.":[26],"LErNet":[27,106,123],"is":[28,46,60,84,124,131],"method":[30],"to":[31,72,108],"silico":[33],"define":[34],"and":[35,79,113],"predict":[36],"the":[37,44,53,64,73,90,103],"roles":[38],"IncRNAs.":[40,57],"The":[41,58,82,99],"core":[42],"approach":[45],"network":[48],"expansion":[49],"algorithm":[50],"which":[51],"enriches":[52],"genomic":[54,78],"context":[55,59,121],"built":[61],"by":[62],"integrating":[63],"genes":[65],"encoding":[66],"proteins":[67],"that":[68],"found":[70],"next":[71],"both":[76,102],"at":[77,133],"system":[80],"level.":[81],"pipeline":[83],"particularly":[85],"useful":[86],"situations":[88],"where":[89],"functions":[91],"discovered":[93],"IncRNAs":[94],"known.":[98],"results":[100],"show":[101],"outperformance":[104],"compared":[107],"enrichment":[109],"approaches":[110],"literature":[112],"its":[114],"robustness":[115],"case":[117],"partially":[119],"missing":[120],"information.":[122],"provided":[125],"as":[126],"an":[127],"R":[128],"package.":[129],"It":[130],"available":[132],"https://github.com/InfOmics/LErNet.":[134]},"counts_by_year":[],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}