{"id":"https://openalex.org/W2114363816","doi":"https://doi.org/10.1093/bib/bbt006","title":"Biological network extraction from scientific literature: state of the art and challenges","display_name":"Biological network extraction from scientific literature: state of the art and challenges","publication_year":2013,"publication_date":"2013-02-22","ids":{"openalex":"https://openalex.org/W2114363816","doi":"https://doi.org/10.1093/bib/bbt006","mag":"2114363816","pmid":"https://pubmed.ncbi.nlm.nih.gov/23434632"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbt006","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbt006","pdf_url":"https://academic.oup.com/bib/article-pdf/15/5/856/7249919/bbt006.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/15/5/856/7249919/bbt006.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100369793","display_name":"Chen Li","orcid":"https://orcid.org/0000-0002-0079-3106"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I4210137637","display_name":"Bioinformatics Institute","ror":"https://ror.org/04btxg914","country_code":"RU","type":"nonprofit","lineage":["https://openalex.org/I4210137637"]}],"countries":["GB","RU"],"is_corresponding":false,"raw_author_name":"C. Li","raw_affiliation_strings":["Chen Li works at the European Bioinformatics Institute (EMBL-EBI). He is interested in biomedical text mining by using machine learning and natural language processing methods. In the past, he also contributed to Systems Biology community by participating the development of public services","[European Bioinformatics Institute, Cambridge, United Kingdom]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chen Li works at the European Bioinformatics Institute (EMBL-EBI). He is interested in biomedical text mining by using machine learning and natural language processing methods. In the past, he also contributed to Systems Biology community by participating the development of public services","institution_ids":["https://openalex.org/I4210137637"]},{"raw_affiliation_string":"[European Bioinformatics Institute, Cambridge, United Kingdom]","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007426895","display_name":"Maria Liakata","orcid":"https://orcid.org/0000-0001-5765-0416"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I2802641067","display_name":"Leverhulme Trust","ror":"https://ror.org/012mzw131","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I2802641067"]},{"id":"https://openalex.org/I39555362","display_name":"University of Warwick","ror":"https://ror.org/01a77tt86","country_code":"GB","type":"education","lineage":["https://openalex.org/I39555362"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"M. Liakata","raw_affiliation_strings":["Maria Liakata has been recently appointed to the position of Assistant Professor at the Department of Computer Science, University of Warwick, UK. She holds a Leverhulme Trust Early Career Research Fellow and is a visiting researcher at EMBL-EBI. Her work has contributed to advances in knowledge discovery from corpora, automation of scientific experimentation and automatic extraction of information from the scientific literature","European Bioinformatics Institute, Cambridge, United Kingdom","The University of Warwick, Coventry, United Kingdom"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Maria Liakata has been recently appointed to the position of Assistant Professor at the Department of Computer Science, University of Warwick, UK. She holds a Leverhulme Trust Early Career Research Fellow and is a visiting researcher at EMBL-EBI. Her work has contributed to advances in knowledge discovery from corpora, automation of scientific experimentation and automatic extraction of information from the scientific literature","institution_ids":["https://openalex.org/I2802641067"]},{"raw_affiliation_string":"European Bioinformatics Institute, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"The University of Warwick, Coventry, United Kingdom","institution_ids":["https://openalex.org/I39555362"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006224704","display_name":"Dietrich Rebholz\u2010Schuhmann","orcid":"https://orcid.org/0000-0002-1018-0370"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]},{"id":"https://openalex.org/I4210101931","display_name":"HBIS (China)","ror":"https://ror.org/00zjpfj13","country_code":"CN","type":"company","lineage":["https://openalex.org/I4210101931"]}],"countries":["CH","CN","GB"],"is_corresponding":false,"raw_author_name":"D. Rebholz-Schuhmann","raw_affiliation_strings":["Dietrich Rebholz-Schuhmann holds a master in medicine and computer science. He is visiting Research Group Leader at the EBI, where he established several world-class biomedical text-mining services. Currently he pursues research in multilingual biomedical semantic resources at the University of Zuerich, and manages the Journal of biomedical semantics","European Bioinformatics Institute, Cambridge, United Kingdom","University of Zurich, Zurich, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dietrich Rebholz-Schuhmann holds a master in medicine and computer science. He is visiting Research Group Leader at the EBI, where he established several world-class biomedical text-mining services. Currently he pursues research in multilingual biomedical semantic resources at the University of Zuerich, and manages the Journal of biomedical semantics","institution_ids":["https://openalex.org/I4210101931"]},{"raw_affiliation_string":"European Bioinformatics Institute, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"University of Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I202697423"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":6.3423,"has_fulltext":false,"cited_by_count":84,"citation_normalized_percentile":{"value":0.97402505,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":100},"biblio":{"volume":"15","issue":"5","first_page":"856","last_page":"877"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9980000257492065,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9921000003814697,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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":0.778728723526001},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.6347712874412537},{"id":"https://openalex.org/keywords/parsing","display_name":"Parsing","score":0.5866745710372925},{"id":"https://openalex.org/keywords/scientific-literature","display_name":"Scientific literature","score":0.5464450716972351},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.5119872689247131},{"id":"https://openalex.org/keywords/completeness","display_name":"Completeness (order theory)","score":0.4991014003753662},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.46101370453834534},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.4447437524795532},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.415221631526947},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.34944820404052734},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3013538420200348},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.11986270546913147}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.778728723526001},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.6347712874412537},{"id":"https://openalex.org/C186644900","wikidata":"https://www.wikidata.org/wiki/Q194152","display_name":"Parsing","level":2,"score":0.5866745710372925},{"id":"https://openalex.org/C2781083858","wikidata":"https://www.wikidata.org/wiki/Q17327049","display_name":"Scientific literature","level":2,"score":0.5464450716972351},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.5119872689247131},{"id":"https://openalex.org/C17231256","wikidata":"https://www.wikidata.org/wiki/Q5156540","display_name":"Completeness (order theory)","level":2,"score":0.4991014003753662},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.46101370453834534},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.4447437524795532},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.415221631526947},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.34944820404052734},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3013538420200348},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.11986270546913147},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"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/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D008037","descriptor_name":"Linguistics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008037","descriptor_name":"Linguistics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008037","descriptor_name":"Linguistics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbt006","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbt006","pdf_url":"https://academic.oup.com/bib/article-pdf/15/5/856/7249919/bbt006.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23434632","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23434632","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:doi:10.5167/uzh-82209","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","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":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbt006","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbt006","pdf_url":"https://academic.oup.com/bib/article-pdf/15/5/856/7249919/bbt006.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.699999988079071,"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2114363816.pdf"},"referenced_works_count":163,"referenced_works":["https://openalex.org/W76749362","https://openalex.org/W77347155","https://openalex.org/W122290181","https://openalex.org/W138570049","https://openalex.org/W165790511","https://openalex.org/W170020154","https://openalex.org/W191736199","https://openalex.org/W228431503","https://openalex.org/W1484731179","https://openalex.org/W1489127507","https://openalex.org/W1495981708","https://openalex.org/W1507874210","https://openalex.org/W1508977358","https://openalex.org/W1508997485","https://openalex.org/W1510579866","https://openalex.org/W1553452033","https://openalex.org/W1580778888","https://openalex.org/W1594920570","https://openalex.org/W1623698862","https://openalex.org/W1634950984","https://openalex.org/W1859283887","https://openalex.org/W1878217576","https://openalex.org/W1898214464","https://openalex.org/W1934019294","https://openalex.org/W1965893653","https://openalex.org/W1969709265","https://openalex.org/W1984361118","https://openalex.org/W1985940938","https://openalex.org/W1987750771","https://openalex.org/W1988791574","https://openalex.org/W1990794790","https://openalex.org/W1991145433","https://openalex.org/W1994306321","https://openalex.org/W1995683190","https://openalex.org/W2001620484","https://openalex.org/W2006388594","https://openalex.org/W2018740272","https://openalex.org/W2018874418","https://openalex.org/W2031445411","https://openalex.org/W2032050710","https://openalex.org/W2032566933","https://openalex.org/W2040298461","https://openalex.org/W2042880070","https://openalex.org/W2044420612","https://openalex.org/W2047647552","https://openalex.org/W2047782770","https://openalex.org/W2048024098","https://openalex.org/W2050263604","https://openalex.org/W2051547811","https://openalex.org/W2053385401","https://openalex.org/W2054558802","https://openalex.org/W2055032581","https://openalex.org/W2056119436","https://openalex.org/W2057545775","https://openalex.org/W2062331696","https://openalex.org/W2064030835","https://openalex.org/W2068094441","https://openalex.org/W2071221957","https://openalex.org/W2075322787","https://openalex.org/W2075655036","https://openalex.org/W2079137604","https://openalex.org/W2083225388","https://openalex.org/W2094726706","https://openalex.org/W2095867585","https://openalex.org/W2096335387","https://openalex.org/W2096507791","https://openalex.org/W2096537696","https://openalex.org/W2096541451","https://openalex.org/W2096718637","https://openalex.org/W2096864392","https://openalex.org/W2096876337","https://openalex.org/W2096939566","https://openalex.org/W2097960255","https://openalex.org/W2098722636","https://openalex.org/W2100822723","https://openalex.org/W2101265630","https://openalex.org/W2101268022","https://openalex.org/W2101425942","https://openalex.org/W2101553882","https://openalex.org/W2103226344","https://openalex.org/W2104070133","https://openalex.org/W2108706252","https://openalex.org/W2109487646","https://openalex.org/W2110408238","https://openalex.org/W2111707517","https://openalex.org/W2111776022","https://openalex.org/W2111925240","https://openalex.org/W2114124738","https://openalex.org/W2115590900","https://openalex.org/W2116159459","https://openalex.org/W2116398954","https://openalex.org/W2116410915","https://openalex.org/W2117770626","https://openalex.org/W2117809888","https://openalex.org/W2120433106","https://openalex.org/W2121844933","https://openalex.org/W2122922578","https://openalex.org/W2124772738","https://openalex.org/W2125160887","https://openalex.org/W2125712079","https://openalex.org/W2125904022","https://openalex.org/W2126276057","https://openalex.org/W2126469373","https://openalex.org/W2127008962","https://openalex.org/W2127147316","https://openalex.org/W2127553917","https://openalex.org/W2129113459","https://openalex.org/W2129657639","https://openalex.org/W2129769245","https://openalex.org/W2130687290","https://openalex.org/W2132773777","https://openalex.org/W2133938042","https://openalex.org/W2134561555","https://openalex.org/W2137052779","https://openalex.org/W2137575744","https://openalex.org/W2137881949","https://openalex.org/W2138275182","https://openalex.org/W2139005816","https://openalex.org/W2140364813","https://openalex.org/W2141885858","https://openalex.org/W2142741334","https://openalex.org/W2143541936","https://openalex.org/W2143892076","https://openalex.org/W2145447349","https://openalex.org/W2146111380","https://openalex.org/W2146954401","https://openalex.org/W2147558260","https://openalex.org/W2147585745","https://openalex.org/W2150131767","https://openalex.org/W2150908245","https://openalex.org/W2151296343","https://openalex.org/W2152228269","https://openalex.org/W2154142897","https://openalex.org/W2155598164","https://openalex.org/W2155782048","https://openalex.org/W2156814909","https://openalex.org/W2158197251","https://openalex.org/W2158505321","https://openalex.org/W2159203162","https://openalex.org/W2159335058","https://openalex.org/W2162376033","https://openalex.org/W2163485494","https://openalex.org/W2163748594","https://openalex.org/W2164199489","https://openalex.org/W2165129453","https://openalex.org/W2165253681","https://openalex.org/W2165671627","https://openalex.org/W2165674132","https://openalex.org/W2167334954","https://openalex.org/W2167536328","https://openalex.org/W2168652246","https://openalex.org/W2169621150","https://openalex.org/W2169918010","https://openalex.org/W2171283231","https://openalex.org/W2171311064","https://openalex.org/W2171674772","https://openalex.org/W2251236846","https://openalex.org/W2396070671","https://openalex.org/W2404247930","https://openalex.org/W2493484520","https://openalex.org/W2616693294","https://openalex.org/W4233334497","https://openalex.org/W4320301318"],"related_works":["https://openalex.org/W2888256870","https://openalex.org/W2376135541","https://openalex.org/W2394022102","https://openalex.org/W1788528807","https://openalex.org/W2725657302","https://openalex.org/W2393978999","https://openalex.org/W1590308178","https://openalex.org/W2153799433","https://openalex.org/W2024070962","https://openalex.org/W2367301249"],"abstract_inverted_index":{"Networks":[0],"of":[1,20,41,69,79,106,113,146,152,157,184,191,197,207],"molecular":[2,13],"interactions":[3,42],"explain":[4],"complex":[5,91],"biological":[6,124,153],"processes,":[7],"and":[8,28,45,67,90,149,168,176,204,216],"all":[9,59],"known":[10],"information":[11,81,135,199],"on":[12],"events":[14],"is":[15,50,86,98],"contained":[16],"in":[17],"a":[18],"number":[19],"public":[21],"repositories":[22],"including":[23],"the":[24,64,76,83,94,103,107,144,150,182,189,192,195,201,205],"scientific":[25,84,108,137,202],"literature.":[26],"Metabolic":[27],"signalling":[29],"pathways":[30],"are":[31,39,172,177],"often":[32],"viewed":[33],"separately,":[34],"even":[35],"though":[36],"both":[37],"types":[38],"composed":[40],"involving":[43],"proteins":[44],"other":[46],"chemical":[47],"entities.":[48],"It":[49],"necessary":[51],"to":[52,55,62,122,131,139,179],"be":[53,130],"able":[54],"combine":[56,132],"data":[57],"from":[58,82,136,200],"available":[60],"resources":[61],"judge":[63],"functionality,":[65],"complexity":[66],"completeness":[68],"any":[70],"given":[71],"network":[72,198],"overall,":[73],"but":[74],"especially":[75],"full":[77,104,119],"integration":[78],"relevant":[80],"literature":[85,109,203],"still":[87],"an":[88],"ongoing":[89],"task.":[92],"Currently,":[93],"text-mining":[95],"research":[96],"community":[97],"steadily":[99],"moving":[100],"towards":[101],"processing":[102],"body":[105],"by":[110],"making":[111],"use":[112],"rich":[114],"linguistic":[115],"features":[116],"such":[117,162],"as":[118,163],"text":[120],"parsing,":[121],"extract":[123],"interactions.":[125],"The":[126,155],"next":[127],"step":[128],"will":[129],"these":[133],"with":[134],"databases":[138],"support":[140],"hypothesis":[141],"generation":[142,156],"for":[143,194,219],"discovery":[145],"new":[147],"knowledge":[148],"extension":[151],"networks.":[154],"comprehensive":[158],"networks":[159],"requires":[160],"technologies":[161],"entity":[164],"grounding,":[165],"coordination":[166],"resolution":[167],"co-reference":[169],"resolution,":[170],"which":[171],"not":[173],"fully":[174],"solved":[175],"required":[178],"further":[180],"improve":[181],"quality":[183],"results.":[185],"Here,":[186],"we":[187],"analyse":[188],"state":[190],"art":[193],"extraction":[196,208],"evaluation":[206],"methods":[209],"against":[210],"reference":[211],"corpora,":[212],"discuss":[213],"challenges":[214],"involved":[215],"identify":[217],"directions":[218],"future":[220],"research.":[221]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":11},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":17},{"year":2015,"cited_by_count":14},{"year":2014,"cited_by_count":8},{"year":2013,"cited_by_count":4}],"updated_date":"2026-06-23T06:36:01.041984","created_date":"2025-10-10T00:00:00"}
