Macnee, Marie, Perez-Palma, Eduardo ORCID: 0000-0003-0546-5141, Schumacher-Bass, Sarah, Dalton, Jarrod, Leu, Costin, Blankenberg, Daniel ORCID: 0000-0002-6833-9049 and Lal, Dennis (2021). SimText: a text mining framework for interactive analysis and visualization of similarities among biomedical entities. Bioinformatics, 37 (22). S. 4285 - 4288. OXFORD: OXFORD UNIV PRESS. ISSN 1460-2059

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Abstract

Literature exploration in PubMed on a large number of biomedical entities (e.g. genes, diseases or experiments) can be time-consuming and challenging, especially when assessing associations between entities. Here, we describe SimText, a user-friendly toolset that provides customizable and systematic workflows for the analysis of similarities among a set of entities based on text. SimText can be used for (i) text collection from PubMed and extraction of words with different text mining approaches, and (ii) interactive analysis and visualization of data using unsupervised learning techniques in an interactive app.

Item Type: Journal Article
Creators:
CreatorsEmailORCIDORCID Put Code
Macnee, MarieUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Perez-Palma, EduardoUNSPECIFIEDorcid.org/0000-0003-0546-5141UNSPECIFIED
Schumacher-Bass, SarahUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Dalton, JarrodUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Leu, CostinUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Blankenberg, DanielUNSPECIFIEDorcid.org/0000-0002-6833-9049UNSPECIFIED
Lal, DennisUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
URN: urn:nbn:de:hbz:38-592116
DOI: 10.1093/bioinformatics/btab365
Journal or Publication Title: Bioinformatics
Volume: 37
Number: 22
Page Range: S. 4285 - 4288
Date: 2021
Publisher: OXFORD UNIV PRESS
Place of Publication: OXFORD
ISSN: 1460-2059
Language: English
Faculty: Unspecified
Divisions: Unspecified
Subjects: no entry
Uncontrolled Keywords:
KeywordsLanguage
Biochemical Research Methods; Biotechnology & Applied Microbiology; Computer Science, Interdisciplinary Applications; Mathematical & Computational Biology; Statistics & ProbabilityMultiple languages
URI: http://kups.ub.uni-koeln.de/id/eprint/59211

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