{"id":"https://openalex.org/W3165063709","doi":"https://doi.org/10.1093/bioinformatics/btab365","title":"SimText: a text mining framework for interactive analysis and visualization of similarities among biomedical entities","display_name":"SimText: a text mining framework for interactive analysis and visualization of similarities among biomedical entities","publication_year":2021,"publication_date":"2021-05-24","ids":{"openalex":"https://openalex.org/W3165063709","doi":"https://doi.org/10.1093/bioinformatics/btab365","mag":"3165063709","pmid":"https://pubmed.ncbi.nlm.nih.gov/34037702"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab365","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab365","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/22/4285/41184019/btab365.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/37/22/4285/41184019/btab365.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5112745740","display_name":"Marie Macnee","orcid":null},"institutions":[{"id":"https://openalex.org/I180923762","display_name":"University of Cologne","ror":"https://ror.org/00rcxh774","country_code":"DE","type":"education","lineage":["https://openalex.org/I180923762"]},{"id":"https://openalex.org/I4210153755","display_name":"University Hospital Cologne","ror":"https://ror.org/05mxhda18","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210153755"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Marie Macnee","raw_affiliation_strings":["Cologne Center for Genomics (CCG), Medical Faculty of the University of Cologne, University Hospital of Cologne , Cologne 50931, Germany"],"affiliations":[{"raw_affiliation_string":"Cologne Center for Genomics (CCG), Medical Faculty of the University of Cologne, University Hospital of Cologne , Cologne 50931, Germany","institution_ids":["https://openalex.org/I4210153755","https://openalex.org/I180923762"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089854537","display_name":"Eduardo P\u00e9rez\u2010Palma","orcid":"https://orcid.org/0000-0003-0546-5141"},"institutions":[{"id":"https://openalex.org/I133599470","display_name":"Universidad del Desarrollo","ror":"https://ror.org/05y33vv83","country_code":"CL","type":"education","lineage":["https://openalex.org/I133599470"]},{"id":"https://openalex.org/I2801797538","display_name":"Cl\u00ednica Alemana","ror":"https://ror.org/028ynny55","country_code":"CL","type":"healthcare","lineage":["https://openalex.org/I2801797538"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Eduardo P\u00e9rez-Palma","raw_affiliation_strings":["Universidad del Desarrollo, Centro de Gen\u00e9tica y Gen\u00f3mica, Facultad de Medicina Cl\u00ednica Alemana , Santiago 7590943, Chile"],"affiliations":[{"raw_affiliation_string":"Universidad del Desarrollo, Centro de Gen\u00e9tica y Gen\u00f3mica, Facultad de Medicina Cl\u00ednica Alemana , Santiago 7590943, Chile","institution_ids":["https://openalex.org/I133599470","https://openalex.org/I2801797538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086366787","display_name":"Sarah M. Schumacher","orcid":"https://orcid.org/0000-0002-4941-7267"},"institutions":[{"id":"https://openalex.org/I36373038","display_name":"Cleveland Clinic Lerner College of Medicine","ror":"https://ror.org/02x4b0932","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1316902750","https://openalex.org/I36373038"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sarah Schumacher-Bass","raw_affiliation_strings":["Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA"],"affiliations":[{"raw_affiliation_string":"Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA","institution_ids":["https://openalex.org/I36373038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060045309","display_name":"Jarrod E. Dalton","orcid":"https://orcid.org/0000-0001-8336-1212"},"institutions":[{"id":"https://openalex.org/I1316902750","display_name":"Cleveland Clinic","ror":"https://ror.org/03xjacd83","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1316902750"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jarrod Dalton","raw_affiliation_strings":["Department of Cardiovascular and Metabolic Sciences, Cleveland Clinic , Cleveland, OH, 44195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Cardiovascular and Metabolic Sciences, Cleveland Clinic , Cleveland, OH, 44195, USA","institution_ids":["https://openalex.org/I1316902750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050491303","display_name":"Costin Leu","orcid":"https://orcid.org/0000-0003-0598-3301"},"institutions":[{"id":"https://openalex.org/I36373038","display_name":"Cleveland Clinic Lerner College of Medicine","ror":"https://ror.org/02x4b0932","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1316902750","https://openalex.org/I36373038"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Costin Leu","raw_affiliation_strings":["Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA"],"affiliations":[{"raw_affiliation_string":"Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA","institution_ids":["https://openalex.org/I36373038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075101770","display_name":"Daniel Blankenberg","orcid":"https://orcid.org/0000-0002-6833-9049"},"institutions":[{"id":"https://openalex.org/I36373038","display_name":"Cleveland Clinic Lerner College of Medicine","ror":"https://ror.org/02x4b0932","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1316902750","https://openalex.org/I36373038"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel Blankenberg","raw_affiliation_strings":["Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA"],"affiliations":[{"raw_affiliation_string":"Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA","institution_ids":["https://openalex.org/I36373038"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010212767","display_name":"Dennis Lal","orcid":"https://orcid.org/0000-0002-5173-9636"},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]},{"id":"https://openalex.org/I1316902750","display_name":"Cleveland Clinic","ror":"https://ror.org/03xjacd83","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1316902750"]},{"id":"https://openalex.org/I180923762","display_name":"University of Cologne","ror":"https://ror.org/00rcxh774","country_code":"DE","type":"education","lineage":["https://openalex.org/I180923762"]},{"id":"https://openalex.org/I36373038","display_name":"Cleveland Clinic Lerner College of Medicine","ror":"https://ror.org/02x4b0932","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1316902750","https://openalex.org/I36373038"]},{"id":"https://openalex.org/I4210153755","display_name":"University Hospital Cologne","ror":"https://ror.org/05mxhda18","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210153755"]},{"id":"https://openalex.org/I4210162296","display_name":"The Neurological Institute","ror":"https://ror.org/05ty23t08","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210162296"]}],"countries":["DE","US"],"is_corresponding":true,"raw_author_name":"Dennis Lal","raw_affiliation_strings":["Cologne Center for Genomics (CCG), Medical Faculty of the University of Cologne, University Hospital of Cologne , Cologne 50931, Germany","Epilepsy Center, Neurological Institute, Cleveland Clinic , Cleveland, OH 44195, USA","Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA","Stanley Center, Broad Institute of MIT and Harvard , Cambridge, MA 02142, USA"],"affiliations":[{"raw_affiliation_string":"Cologne Center for Genomics (CCG), Medical Faculty of the University of Cologne, University Hospital of Cologne , Cologne 50931, Germany","institution_ids":["https://openalex.org/I4210153755","https://openalex.org/I180923762"]},{"raw_affiliation_string":"Epilepsy Center, Neurological Institute, Cleveland Clinic , Cleveland, OH 44195, USA","institution_ids":["https://openalex.org/I4210162296","https://openalex.org/I1316902750"]},{"raw_affiliation_string":"Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic , Cleveland, OH 44195, USA","institution_ids":["https://openalex.org/I36373038"]},{"raw_affiliation_string":"Stanley Center, Broad Institute of MIT and Harvard , Cambridge, MA 02142, USA","institution_ids":["https://openalex.org/I107606265"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5010212767"],"corresponding_institution_ids":["https://openalex.org/I107606265","https://openalex.org/I1316902750","https://openalex.org/I180923762","https://openalex.org/I36373038","https://openalex.org/I4210153755","https://openalex.org/I4210162296"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.4067,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.58839643,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"37","issue":"22","first_page":"4285","last_page":"4287"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9951000213623047,"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":0.9951000213623047,"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":0.9934999942779541,"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/T13083","display_name":"Advanced Text Analysis Techniques","score":0.9857000112533569,"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/visualization","display_name":"Visualization","score":0.8172793984413147},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6878196001052856},{"id":"https://openalex.org/keywords/interactive-visualization","display_name":"Interactive visualization","score":0.4470394551753998},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.44124409556388855},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4179002642631531},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4126991331577301},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3636263608932495},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.3517954349517822},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14991611242294312}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.8172793984413147},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6878196001052856},{"id":"https://openalex.org/C64073096","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Interactive visualization","level":3,"score":0.4470394551753998},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.44124409556388855},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4179002642631531},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4126991331577301},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3636263608932495},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.3517954349517822},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14991611242294312}],"mesh":[{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btab365","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab365","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/22/4285/41184019/btab365.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34037702","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34037702","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:USBKOELN.ub.uni-koeln.de:59211","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400371","display_name":"K\u00f6lner Universit\u00e4ts PublikationsServer (Universit\u00e4t zu K\u00f6ln)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210115942","host_organization_name":"Rhenish Institute for Environmental Research","host_organization_lineage":["https://openalex.org/I4210115942"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"doc-type:article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9502138","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9502138","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab365","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab365","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/22/4285/41184019/btab365.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3165063709.pdf","grobid_xml":"https://content.openalex.org/works/W3165063709.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W2017614800","https://openalex.org/W2900569176","https://openalex.org/W2911489562","https://openalex.org/W2917207851","https://openalex.org/W2946690328","https://openalex.org/W2950342274","https://openalex.org/W6755912153","https://openalex.org/W6757456438","https://openalex.org/W6758264904"],"related_works":["https://openalex.org/W2006240110","https://openalex.org/W2909972699","https://openalex.org/W2751110224","https://openalex.org/W2039602384","https://openalex.org/W2496664377","https://openalex.org/W4312613920","https://openalex.org/W2288407995","https://openalex.org/W2147036980","https://openalex.org/W304756206","https://openalex.org/W2140525502"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
