{"id":"https://openalex.org/W2139051211","doi":"https://doi.org/10.1186/1471-2105-16-s16-s1","title":"Sieve-based relation extraction of gene regulatory networks from biological literature","display_name":"Sieve-based relation extraction of gene regulatory networks from biological literature","publication_year":2015,"publication_date":"2015-10-30","ids":{"openalex":"https://openalex.org/W2139051211","doi":"https://doi.org/10.1186/1471-2105-16-s16-s1","mag":"2139051211","pmid":"https://pubmed.ncbi.nlm.nih.gov/26551454"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-16-s16-s1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s16-s1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S16-S1","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S16-S1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5035549617","display_name":"Slavko \u017ditnik","orcid":"https://orcid.org/0000-0003-3452-1106"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I2957750942","display_name":"BIA Separations (Slovenia)","ror":"https://ror.org/03f2kwz12","country_code":"SI","type":"company","lineage":["https://openalex.org/I2957750942"]}],"countries":["SI"],"is_corresponding":true,"raw_author_name":"Slavko \u017ditnik","raw_affiliation_strings":["Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","Optilab d.o.o., \u017dupan\u010di\u010deva 8, SI-5270, Ajdov\u0161\u010dina, Slovenia","Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]},{"raw_affiliation_string":"Optilab d.o.o., \u017dupan\u010di\u010deva 8, SI-5270, Ajdov\u0161\u010dina, Slovenia","institution_ids":["https://openalex.org/I2957750942"]},{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086052373","display_name":"Marinka \u017ditnik","orcid":"https://orcid.org/0000-0001-8530-7228"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Marinka \u017ditnik","raw_affiliation_strings":["Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]},{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073792028","display_name":"Bla\u017e Zupan","orcid":"https://orcid.org/0000-0002-5864-7056"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]},{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["SI","US"],"is_corresponding":false,"raw_author_name":"Bla\u017e Zupan","raw_affiliation_strings":["Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA","Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, USA","Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA","institution_ids":["https://openalex.org/I181547552"]},{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]},{"raw_affiliation_string":"Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, USA","institution_ids":["https://openalex.org/I181547552"]},{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084950606","display_name":"Marko Bajec","orcid":"https://orcid.org/0000-0002-8502-6765"},"institutions":[{"id":"https://openalex.org/I153976015","display_name":"University of Ljubljana","ror":"https://ror.org/05njb9z20","country_code":"SI","type":"education","lineage":["https://openalex.org/I153976015"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Marko Bajec","raw_affiliation_strings":["Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ve\u010dna pot 113, SI-1000, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]},{"raw_affiliation_string":"Faculty of Computer and Information Science, University of Ljubljana, Ljubljana, Slovenia","institution_ids":["https://openalex.org/I153976015"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5035549617"],"corresponding_institution_ids":["https://openalex.org/I153976015","https://openalex.org/I2957750942"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.5511,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.66653619,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"16","issue":"S16","first_page":"S1","last_page":"S1"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9890000224113464,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9890000224113464,"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/T13083","display_name":"Advanced Text Analysis Techniques","score":0.003100000089034438,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.002199999988079071,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7743808627128601},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.7609332203865051},{"id":"https://openalex.org/keywords/relation","display_name":"Relation (database)","score":0.6927304863929749},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.6028568744659424},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5706925988197327},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.522689938545227},{"id":"https://openalex.org/keywords/extraction","display_name":"Extraction (chemistry)","score":0.4598698318004608},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4263920485973358},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.41293883323669434},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.3771534860134125},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.36381155252456665},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.1733737289905548}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7743808627128601},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.7609332203865051},{"id":"https://openalex.org/C25343380","wikidata":"https://www.wikidata.org/wiki/Q277521","display_name":"Relation (database)","level":2,"score":0.6927304863929749},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.6028568744659424},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5706925988197327},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.522689938545227},{"id":"https://openalex.org/C4725764","wikidata":"https://www.wikidata.org/wiki/Q844704","display_name":"Extraction (chemistry)","level":2,"score":0.4598698318004608},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4263920485973358},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.41293883323669434},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.3771534860134125},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.36381155252456665},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.1733737289905548},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1186/1471-2105-16-s16-s1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s16-s1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S16-S1","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26551454","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26551454","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:3620871","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4642041","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-16-s16-s1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s16-s1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S16-S1","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Quality Education","score":0.7900000214576721,"id":"https://metadata.un.org/sdg/4"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2139051211.pdf","grobid_xml":"https://content.openalex.org/works/W2139051211.grobid-xml"},"referenced_works_count":71,"referenced_works":["https://openalex.org/W314565566","https://openalex.org/W1489949474","https://openalex.org/W1493270114","https://openalex.org/W1528012351","https://openalex.org/W1562647876","https://openalex.org/W1623072288","https://openalex.org/W1679133234","https://openalex.org/W1775188621","https://openalex.org/W1870056855","https://openalex.org/W1874869336","https://openalex.org/W1914733988","https://openalex.org/W1929627202","https://openalex.org/W1964670939","https://openalex.org/W1971587974","https://openalex.org/W1982532675","https://openalex.org/W1990601805","https://openalex.org/W1992770405","https://openalex.org/W1998588668","https://openalex.org/W2003619089","https://openalex.org/W2029838682","https://openalex.org/W2030408698","https://openalex.org/W2032340492","https://openalex.org/W2032566933","https://openalex.org/W2032729847","https://openalex.org/W2053673723","https://openalex.org/W2071744122","https://openalex.org/W2081580037","https://openalex.org/W2090247362","https://openalex.org/W2092269560","https://openalex.org/W2101080851","https://openalex.org/W2103017472","https://openalex.org/W2103272886","https://openalex.org/W2105063934","https://openalex.org/W2105924489","https://openalex.org/W2112404034","https://openalex.org/W2115534091","https://openalex.org/W2117243134","https://openalex.org/W2122496897","https://openalex.org/W2124275008","https://openalex.org/W2124617249","https://openalex.org/W2124805860","https://openalex.org/W2126539437","https://openalex.org/W2126975755","https://openalex.org/W2129657639","https://openalex.org/W2130538915","https://openalex.org/W2134967412","https://openalex.org/W2138627627","https://openalex.org/W2143892076","https://openalex.org/W2145948275","https://openalex.org/W2147880316","https://openalex.org/W2155247542","https://openalex.org/W2165247488","https://openalex.org/W2167539386","https://openalex.org/W2189288216","https://openalex.org/W2250204381","https://openalex.org/W2251279337","https://openalex.org/W2251814321","https://openalex.org/W2252163153","https://openalex.org/W2252186967","https://openalex.org/W2524182563","https://openalex.org/W2536379393","https://openalex.org/W2608050011","https://openalex.org/W2886362482","https://openalex.org/W2911267749","https://openalex.org/W2911699369","https://openalex.org/W2913389685","https://openalex.org/W2913529121","https://openalex.org/W2914431807","https://openalex.org/W2914463643","https://openalex.org/W4242009368","https://openalex.org/W4249458466"],"related_works":["https://openalex.org/W2976808399","https://openalex.org/W2609844752","https://openalex.org/W2981341912","https://openalex.org/W4285246823","https://openalex.org/W4226278302","https://openalex.org/W4385734297","https://openalex.org/W2547211086","https://openalex.org/W4221160509","https://openalex.org/W2572241437","https://openalex.org/W4379379356"],"abstract_inverted_index":{"BACKGROUND:":[0],"Relation":[1],"extraction":[2,82,104,150,159,232,357],"is":[3,77,114,180,285],"an":[4,25,45],"essential":[5],"procedure":[6],"in":[7,44,142,201,272],"literature":[8,23],"mining.":[9],"It":[10],"focuses":[11],"on":[12,344],"extracting":[13],"semantic":[14],"relations":[15,51,162,289],"between":[16,220,268,290],"parts":[17],"of":[18,28,31,38,80,105,160,178,206,239,263,266,279,332,355],"text,":[19],"called":[20],"mentions.":[21,292],"Biomedical":[22],"includes":[24],"enormous":[26],"amount":[27],"textual":[29,110],"descriptions":[30],"biological":[32],"entities,":[33],"their":[34,251],"interactions":[35],"and":[36,120,126,223,250,253,325,348,359],"results":[37,331],"related":[39],"experiments.":[40],"To":[41,157],"extract":[42,183,308],"them":[43],"explicit,":[46],"computer":[47],"readable":[48],"format,":[49],"these":[50],"were":[52],"at":[53,152],"first":[54],"extracted":[55,136],"manually":[56],"from":[57,109,210],"databases.":[58],"Manual":[59],"curation":[60],"was":[61],"later":[62],"replaced":[63],"with":[64,69,299,337],"automatic":[65],"or":[66,323],"semi-automatic":[67],"tools":[68],"natural":[70],"language":[71],"processing":[72],"capabilities.":[73],"The":[74,310],"current":[75],"challenge":[76,151],"the":[78,137,143,148,153,168,188,203,216,221,224,236,240,256,273,314,330],"development":[79],"information":[81,149],"procedures":[83],"that":[84,199,229,276],"can":[85,303,319,328,341],"directly":[86],"infer":[87,174],"more":[88],"complex":[89],"relational":[90],"structures,":[91],"such":[92],"as":[93,116,215,316],"gene":[94,106,139],"regulatory":[95,107],"networks.":[96],"RESULTS:":[97],"We":[98,173,227],"develop":[99],"a":[100,117],"computational":[101],"approach":[102],"for":[103,128,147,260,287],"networks":[108],"data.":[111],"Our":[112],"method":[113,133],"designed":[115],"sieve-based":[118,311],"system":[119,197,315],"uses":[121],"linear-chain":[122],"conditional":[123,295,338],"random":[124,296,339],"fields":[125,340],"rules":[127],"relation":[129,231,356],"extraction.":[130,264],"With":[131],"this":[132],"we":[134,166,191],"successfully":[135],"sporulation":[138,208],"regulation":[140],"network":[141,209],"bacterium":[144],"Bacillus":[145],"subtilis":[146],"BioNLP":[154],"2013":[155],"conference.":[156],"enable":[158],"distant":[161,291],"using":[163,195],"first-order":[164],"models,":[165,176],"transform":[167],"data":[169,281,301,347,360],"into":[170,282],"skip-mention":[171,283],"sequences.":[172],"multiple":[175],"each":[177,326],"which":[179],"able":[181],"to":[182,212,235,307,352],"different":[184,196,269],"relationship":[185],"types.":[186],"Following":[187],"shared":[189],"task,":[190],"conducted":[192],"additional":[193],"analysis":[194],"settings":[198],"resulted":[200],"reducing":[202],"reconstruction":[204],"error":[205,218],"bacterial":[207],"0.73":[211],"0.68,":[213],"measured":[214],"slot":[217],"rate":[219],"predicted":[222],"reference":[225],"network.":[226],"observe":[228],"all":[230],"sieves":[233,318,336],"contribute":[234],"predictive":[237],"performance":[238],"proposed":[241],"approach.":[242],"Also,":[243],"features":[244,259],"constructed":[245],"by":[246],"considering":[247],"mention":[248,270],"words":[249],"prefixes":[252],"suffixes":[254],"are":[255,350],"most":[257],"important":[258],"higher":[261],"accuracy":[262],"Analysis":[265],"distances":[267],"types":[271],"text":[274,346],"shows":[275],"our":[277],"choice":[278],"transforming":[280],"sequences":[284],"appropriate":[286,300],"detecting":[288],"CONCLUSIONS:":[293],"Linear-chain":[294],"fields,":[297],"along":[298],"transformations,":[302],"be":[304,320,342],"efficiently":[305],"used":[306],"relations.":[309],"architecture":[312],"simplifies":[313],"new":[317],"easily":[321],"added":[322],"removed":[324],"sieve":[327],"utilize":[329],"previous":[333],"ones.":[334],"Furthermore,":[335],"trained":[343],"arbitrary":[345],"hence":[349],"applicable":[351],"broad":[353],"range":[354],"tasks":[358],"domains.":[361]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":3},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2}],"updated_date":"2026-07-27T08:26:11.824852","created_date":"2025-10-10T00:00:00"}