Identifying Data Sharing in Biomedical Literature

Identifying Data Sharing in Biomedical Literature

Many policies and projects now encourage investigators to share their raw research data with other scientists. Unfortunately, it is difficult to measure the effectiveness of these initiatives because data can be shared in such a variety of mechanisms and locations. We propose a novel approach to finding shared datasets: using NLP techniques to identify declarations of dataset sharing within the...

Identifying Experimental Techniques in Biomedical Literature

Named entity recognition of gene names, protein names, cell-lines, and other biologically relevant concepts has received significant attention by the research community. In this work, we considered named entity recognition of experimental techniques in biomedical articles. In our system to mine gene and disease associations, each association is categorized by the techniques used to derive the a...

Identifying genetic interaction evidence passages in biomedical literature

In this work, we report our contributions to the BioC Track of BioCreative V for the task of identifying genetic interaction evidence passages. Text describing genetic interactions is difficult to identify due to no simple definition for these interactions and lack of training data. We prepared two manually annotated datasets containing 1793 PubMed abstract and 1000 full text sentences, respect...

redundant publication' or 'duplicate publication' in the biomedical literature

Using image mapping towards biomedical and biological data sharing

: Image-based data integration in eHealth and life sciences is typically concerned with the method used for anatomical space mapping, needed to retrieve, compare and analyse large volumes of biomedical data. In mapping one image onto another image, a mechanism is used to match and find the corresponding spatial regions which have the same meaning between the source and the matching image. Image...