Leveraging the web for automating tag expansion for low-content items

Singhal, Ayush; Srivastava, Jaideep

doi:10.1109/iri.2014.7051937

Cited by 2 publications

(1 citation statement)

References 23 publications

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“…Text mining is also envisioned to play a complementary role by linking curated figures with interpretative statements made in the article or with reagents listed in ‘Materials and Methods’ section. Finally, text-mining techniques developed for computer science publications (19, 20) might be useful to automatically prioritize a pool of candidate publications for further extraction of detailed experimental data and metadata.…”

Section: Real World Large Scale Applicationsmentioning

confidence: 99%

Pressing needs of biomedical text mining in biocuration and beyond: opportunities and challenges

Singhal¹,

Leaman²,

Catlett³

et al. 2016

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Text mining in the biomedical sciences is rapidly transitioning from small-scale evaluation to large-scale application. In this article, we argue that text-mining technologies have become essential tools in real-world biomedical research. We describe four large scale applications of text mining, as showcased during a recent panel discussion at the BioCreative V Challenge Workshop. We draw on these applications as case studies to characterize common requirements for successfully applying text-mining techniques to practical biocuration needs. We note that system ‘accuracy’ remains a challenge and identify several additional common difficulties and potential research directions including (i) the ‘scalability’ issue due to the increasing need of mining information from millions of full-text articles, (ii) the ‘interoperability’ issue of integrating various text-mining systems into existing curation workflows and (iii) the ‘reusability’ issue on the difficulty of applying trained systems to text genres that are not seen previously during development. We then describe related efforts within the text-mining community, with a special focus on the BioCreative series of challenge workshops. We believe that focusing on the near-term challenges identified in this work will amplify the opportunities afforded by the continued adoption of text-mining tools. Finally, in order to sustain the curation ecosystem and have text-mining systems adopted for practical benefits, we call for increased collaboration between text-mining researchers and various stakeholders, including researchers, publishers and biocurators.

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Section: Real World Large Scale Applicationsmentioning

confidence: 99%