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Semantic Mining of Languages in Biology and Medicine

Edited by: Jong Park, Sampo Pyysalo, and Fabio Rinaldi

The Semantic Mining of Languages in Biology and Medicine thematic series focuses on representation and mining of various languages used in biology and medicine, and in associated disciplines such as chemistry, biodiversity, environmental sciences, pharmacology, etc. The scope and ideas for this series are rooted in two workshops that have been taking place from 2005. The International Symposium on Languages in Biology and Medicine (LBM) is a biennial interdisciplinary forum that brings together researchers in biology, chemistry, medicine, public health and informatics to discuss and exploit cutting edge language technologies.

Collection published: 9 May 2014
Last updated: 2 June 2014

  1. Content type: Research

    Semantic Category Disambiguation (SCD) is the task of assigning the appropriate semantic category to given spans of text from a fixed set of candidate categories, for example Protein to “Fibrin”. SCD is relevant ...

    Authors: Pontus Stenetorp, Sampo Pyysalo, Sophia Ananiadou and Jun’ichi Tsujii

    Citation: Journal of Biomedical Semantics 2014 5:26

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  2. Content type: Research

    Hospital documents contain free text describing the most important facts relating to patients and their illnesses. These documents are written in specific language containing medical terminology related to hos...

    Authors: Małgorzata Marciniak and Agnieszka Mykowiecka

    Citation: Journal of Biomedical Semantics 2014 5:24

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  3. Content type: Research

    Authors of biomedical publications use gel images to report experimental results such as protein-protein interactions or protein expressions under different conditions. Gel images offer a concise way to commun...

    Authors: Tobias Kuhn, Mate Levente Nagy, ThaiBinh Luong and Michael Krauthammer

    Citation: Journal of Biomedical Semantics 2014 5:10

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  4. Content type: Research

    Terminologies that account for variation in language use by linking synonyms and abbreviations to their corresponding concept are important enablers of high-quality information extraction from medical texts. D...

    Authors: Aron Henriksson, Hans Moen, Maria Skeppstedt, Vidas Daudaravičius and Martin Duneld

    Citation: Journal of Biomedical Semantics 2014 5:6

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  5. Content type: Research

    Identifying phrases that refer to particular concept types is a critical step in extracting information from documents. Provided with annotated documents as training data, supervised machine learning can autom...

    Authors: Manabu Torii, Kavishwar Wagholikar and Hongfang Liu

    Citation: Journal of Biomedical Semantics 2014 5:3

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  6. Content type: Research

    Natural human languages show a power law behaviour in which word frequency (in any large enough corpus) is inversely proportional to word rank - Zipf’s law. We have therefore asked whether similar power law be...

    Authors: Leila R Kalankesh, John P New, Patricia G Baker and Andy Brass

    Citation: Journal of Biomedical Semantics 2014 5:2

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  7. Content type: Research

    In order to perform research on the information contained in Electronic Patient Records (EPRs), access to the data itself is needed. This is often very difficult due to confidentiality regulations. The data se...

    Authors: Hercules Dalianis and Sumithra Velupillai

    Citation: Journal of Biomedical Semantics 2010 1:6

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  8. Content type: Research

    Previous studies have suggested that epidemiological reasoning needs a fine-grained modelling of events, especially their spatial and temporal attributes. While the temporal analysis of events has been intensi...

    Authors: Hutchatai Chanlekha and Nigel Collier

    Citation: Journal of Biomedical Semantics 2010 1:3

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