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- W4297873612 abstract "Previous studies have shown that automated text-mining tools are becoming increasingly important for successfully unlocking variant information in scientific literature at large scale. Despite multiple attempts in the past, existing tools are still of limited recognition scope and precision. We propose tmVar 3.0: an improved variant recognition and normalization tool. Compared to its predecessors, tmVar 3.0 is able to recognize a wide spectrum of variant related entities (e.g., allele and copy number variants), and to group different variant mentions belonging to the same concept in an article for improved accuracy. Moreover, tmVar3 provides additional variant normalization options such as allele-specific identifiers from the ClinGen Allele Registry. tmVar3 exhibits a state-of-the-art performance with over 90% accuracy in F-measure in variant recognition and normalization, when evaluated on three independent benchmarking datasets. tmVar3 is freely available for download. We have also processed the entire PubMed and PMC with tmVar3 and released its annotations on our FTP. Availability: ftp://ftp.ncbi.nlm.nih.gov/pub/lu/tmVar3" @default.
- W4297873612 created "2022-10-01" @default.
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- W4297873612 date "2022-04-07" @default.
- W4297873612 modified "2023-09-29" @default.
- W4297873612 title "tmVar 3.0: an improved variant concept recognition and normalization tool" @default.
- W4297873612 doi "https://doi.org/10.48550/arxiv.2204.03637" @default.
- W4297873612 hasPublicationYear "2022" @default.
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