{"id":"https://openalex.org/W3170383918","doi":"https://doi.org/10.1186/s12859-021-04346-7","title":"Mining microbe\u2013disease interactions from literature via a transfer learning model","display_name":"Mining microbe\u2013disease interactions from literature via a transfer learning model","publication_year":2021,"publication_date":"2021-09-10","ids":{"openalex":"https://openalex.org/W3170383918","doi":"https://doi.org/10.1186/s12859-021-04346-7","mag":"3170383918","pmid":"https://pubmed.ncbi.nlm.nih.gov/34507528"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-021-04346-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04346-7","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04346-7","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/track/pdf/10.1186/s12859-021-04346-7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054335730","display_name":"Chengkun Wu","orcid":"https://orcid.org/0000-0002-9688-5311"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Chengkun Wu","raw_affiliation_strings":["College of Computer, National University of Defense Technology, Changsha, 410073, China. chengkun_wu@nudt.edu.cn","State Key Laboratory of High-Performance Computing, National University of Defense Technology, Changsha, 410073, China. chengkun_wu@nudt.edu.cn","State Key Laboratory of High-Performance Computing, National University of Defense Technology, Changsha, 410073, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer, National University of Defense Technology, Changsha, 410073, China. chengkun_wu@nudt.edu.cn","institution_ids":["https://openalex.org/I170215575"]},{"raw_affiliation_string":"State Key Laboratory of High-Performance Computing, National University of Defense Technology, Changsha, 410073, China. chengkun_wu@nudt.edu.cn","institution_ids":["https://openalex.org/I170215575"]},{"raw_affiliation_string":"State Key Laboratory of High-Performance Computing, National University of Defense Technology, Changsha, 410073, China","institution_ids":["https://openalex.org/I170215575"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073490951","display_name":"Xinyi Xiao","orcid":"https://orcid.org/0009-0009-2854-8477"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xinyi Xiao","raw_affiliation_strings":["College of Computer, National University of Defense Technology, Changsha, 410073, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer, National University of Defense Technology, Changsha, 410073, China","institution_ids":["https://openalex.org/I170215575"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101044975","display_name":"Canqun Yang","orcid":null},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Canqun Yang","raw_affiliation_strings":["College of Computer, National University of Defense Technology, Changsha, 410073, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer, National University of Defense Technology, Changsha, 410073, China","institution_ids":["https://openalex.org/I170215575"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101556251","display_name":"Jin-Xiang Chen","orcid":"https://orcid.org/0000-0002-3963-0718"},"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"]},{"id":"https://openalex.org/I4210159865","display_name":"Xiangya Hospital Central South University","ror":"https://ror.org/05c1yfj14","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159865"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"JinXiang Chen","raw_affiliation_strings":["Department of General Surgery, Xiangya Hospital, Central South University, Changsha, 410008, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of General Surgery, Xiangya Hospital, Central South University, Changsha, 410008, China","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210159865"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066240587","display_name":"Jiacai Yi","orcid":"https://orcid.org/0000-0001-6823-1882"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiacai Yi","raw_affiliation_strings":["College of Computer, National University of Defense Technology, Changsha, 410073, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer, National University of Defense Technology, Changsha, 410073, China","institution_ids":["https://openalex.org/I170215575"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019512392","display_name":"Yanlong Qiu","orcid":"https://orcid.org/0000-0003-4940-5546"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yanlong Qiu","raw_affiliation_strings":["College of Computer, National University of Defense Technology, Changsha, 410073, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer, National University of Defense Technology, Changsha, 410073, China","institution_ids":["https://openalex.org/I170215575"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5054335730"],"corresponding_institution_ids":["https://openalex.org/I170215575"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.8885,"has_fulltext":true,"cited_by_count":20,"citation_normalized_percentile":{"value":0.71781378,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"22","issue":"1","first_page":"432","last_page":"432"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.7117000222206116,"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":0.7117000222206116,"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":0.06719999760389328,"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/T10028","display_name":"Topic Modeling","score":0.049400001764297485,"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/upload","display_name":"Upload","score":0.7996234893798828},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7615079879760742},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.6186888217926025},{"id":"https://openalex.org/keywords/data-curation","display_name":"Data curation","score":0.5297756195068359},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.508665144443512},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.48115289211273193},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4484163522720337},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4292905926704407},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.4157874286174774},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.41181525588035583},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3821227550506592},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3110837936401367},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.2911995053291321},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.19183221459388733}],"concepts":[{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.7996234893798828},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7615079879760742},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.6186888217926025},{"id":"https://openalex.org/C91632574","wikidata":"https://www.wikidata.org/wiki/Q15088675","display_name":"Data curation","level":2,"score":0.5297756195068359},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.508665144443512},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.48115289211273193},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4484163522720337},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4292905926704407},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.4157874286174774},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.41181525588035583},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3821227550506592},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3110837936401367},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.2911995053291321},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.19183221459388733},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","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/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","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":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","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":false},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","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},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-021-04346-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04346-7","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04346-7","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:34507528","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34507528","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:doaj.org/article:5126382b95f14defa421c0e00f08b7f0","is_oa":true,"landing_page_url":"https://doaj.org/article/5126382b95f14defa421c0e00f08b7f0","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 22, Iss 1, Pp 1-15 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8430297","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8430297","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-021-04346-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04346-7","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04346-7","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":[{"id":"https://metadata.un.org/sdg/4","score":0.4399999976158142,"display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G2449171418","display_name":null,"funder_award_id":"2018YFB1003203","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4135978206","display_name":null,"funder_award_id":"U1811462","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5169721444","display_name":null,"funder_award_id":"201901","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8616888495","display_name":null,"funder_award_id":"201901-11","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3170383918.pdf","grobid_xml":"https://content.openalex.org/works/W3170383918.grobid-xml"},"referenced_works_count":52,"referenced_works":["https://openalex.org/W1473718842","https://openalex.org/W1529607257","https://openalex.org/W1534444611","https://openalex.org/W1562793038","https://openalex.org/W1607743621","https://openalex.org/W1914442801","https://openalex.org/W2018874418","https://openalex.org/W2026515672","https://openalex.org/W2041670640","https://openalex.org/W2062153306","https://openalex.org/W2070069376","https://openalex.org/W2081319466","https://openalex.org/W2097352005","https://openalex.org/W2100627415","https://openalex.org/W2107414352","https://openalex.org/W2108976733","https://openalex.org/W2133275312","https://openalex.org/W2142016317","https://openalex.org/W2144001613","https://openalex.org/W2194800798","https://openalex.org/W2298079736","https://openalex.org/W2322763599","https://openalex.org/W2336817596","https://openalex.org/W2567465856","https://openalex.org/W2755483873","https://openalex.org/W2766670563","https://openalex.org/W2776589520","https://openalex.org/W2800535933","https://openalex.org/W2804273195","https://openalex.org/W2807176368","https://openalex.org/W2808522926","https://openalex.org/W2892214302","https://openalex.org/W2916981547","https://openalex.org/W2919427816","https://openalex.org/W2935747616","https://openalex.org/W2945214524","https://openalex.org/W2949176808","https://openalex.org/W2950173838","https://openalex.org/W2962678461","https://openalex.org/W3007198705","https://openalex.org/W3016889019","https://openalex.org/W3023933309","https://openalex.org/W3024796246","https://openalex.org/W3032373750","https://openalex.org/W3033077186","https://openalex.org/W3048018108","https://openalex.org/W3097354806","https://openalex.org/W3118577024","https://openalex.org/W3119962804","https://openalex.org/W3129883075","https://openalex.org/W3132948971","https://openalex.org/W3164202868"],"related_works":["https://openalex.org/W2366107444","https://openalex.org/W2944823289","https://openalex.org/W4388145910","https://openalex.org/W1976205134","https://openalex.org/W3037018281","https://openalex.org/W2381570729","https://openalex.org/W4248336175","https://openalex.org/W2972592048","https://openalex.org/W2358319515","https://openalex.org/W2121570534"],"abstract_inverted_index":{"BACKGROUND:":[0],"Interactions":[1],"of":[2,7,15,162,180,218,238],"microbes":[3],"and":[4,80,92,128,196,233],"diseases":[5,193],"are":[6,18,30],"great":[8],"importance":[9],"for":[10,27,44,97,100,109,154,164,171,191],"biomedical":[11,22,134],"research.":[12],"However,":[13],"large-scale":[14,42],"microbe-disease":[16,28,45,98,110,172],"interactions":[17,29,46,99,156,229],"hidden":[19],"in":[20,31,178],"the":[21,132,140,207,236],"literature.":[23],"The":[24,160,183,246],"structured":[25],"databases":[26],"limited":[32],"amounts.":[33],"In":[34],"this":[35,50],"paper,":[36],"we":[37,86,103,138,223],"aim":[38],"to":[39,78,125,144],"construct":[40],"a":[41,59,64,71,89,93,105,115,243],"database":[43],"automatically.":[47],"We":[48,68,119],"attained":[49],"goal":[51],"via":[52],"applying":[53],"text":[54,106],"mining":[55,107],"methods":[56],"based":[57,113],"on":[58,114],"deep":[60],"learning":[61],"model":[62,117,142,165,209],"with":[63,174,212],"moderate":[65],"curation":[66],"cost.":[67],"also":[69],"built":[70,153],"user-friendly":[72],"web":[73],"interface":[74],"that":[75,203],"allows":[76],"researchers":[77],"navigate":[79],"query":[81],"required":[82],"information.":[83],"RESULTS:":[84],"Firstly,":[85],"manually":[87,234],"constructed":[88],"golden-standard":[90],"corpus":[91,95],"sliver-standard":[94],"(SSC)":[96],"curation.":[101],"Moreover,":[102],"proposed":[104],"framework":[108],"interaction":[111],"extraction":[112],"pretrained":[116,141],"BERE.":[118],"applied":[120],"named":[121],"entity":[122],"recognition":[123],"tools":[124],"detect":[126],"microbe":[127],"disease":[129],"mentions":[130],"from":[131],"free":[133],"texts.":[135],"After":[136],"that,":[137],"fine-tuned":[139],"BERE":[143],"recognize":[145],"relations":[146],"between":[147],"targeted":[148],"entities,":[149],"which":[150,241],"was":[151],"originally":[152],"drug-target":[155],"or":[157,194],"drug-drug":[158],"interactions.":[159],"introduction":[161],"SSC":[163],"fine-tuning":[166],"greatly":[167],"improved":[168],"detection":[169],"performance":[170],"interactions,":[173],"an":[175,213],"average":[176,214],"reduction":[177],"error":[179],"approximately":[181],"10%.":[182],"MDIDB":[184,247],"website":[185],"offers":[186],"data":[187],"browsing,":[188],"custom":[189],"searching":[190],"specific":[192],"microbes,":[195],"batch":[197],"downloading.":[198],"CONCLUSIONS:":[199],"Evaluation":[200],"results":[201],"demonstrate":[202],"our":[204,231],"method":[205],"outperform":[206],"baseline":[208],"(rule-based":[210],"PKDE4J)":[211],"[Formula:":[215],"see":[216],"text]-score":[217],"73.81%.":[219],"For":[220],"further":[221],"validation,":[222],"randomly":[224],"sampled":[225],"nearly":[226],"1000":[227],"predicted":[228],"by":[230],"model,":[232],"checked":[235],"correctness":[237],"each":[239],"interaction,":[240],"gives":[242],"73%":[244],"accuracy.":[245],"webiste":[248],"is":[249],"freely":[250],"avaliable":[251],"throuth":[252],"http://dbmdi.com/index/.":[253]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":5}],"updated_date":"2026-07-25T15:57:00.446498","created_date":"2025-10-10T00:00:00"}
