The production of gold standard corpora is time-consuming and costly. We propose an alternative: the 'silver standard corpus' (SSC), a corpus that has been generated by the harmonisation of the annotations that have been delivered from a selection of annotation systems. The systems have to share the type system for the annotations and the harmonisation solution has use a suitable similarity measure for the pair-wise comparison of the annotations. The annotation systems have been evaluated against the harmonised set (630.324 sentences, 15, 956, 841 tokens). We can demonstrate that the annotation of proteins and genes shows higher diversity across all used annotation solutions leading to a lower agreement against the harmonised set in comparison to the annotations of diseases and species. An analysis of the most frequent annotations from all systems shows that a high agreement amongst systems leads to the selection of terms that are suitable to be kept in the harmonised set. This is the first large-scale approach to generate an annotated corpus from automated annotation systems. Further research is required to understand, how the annotations from different systems have to be combined to produce the best annotation result for a harmonised corpus.

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Persistent URL hdl.handle.net/1765/103402
Conference 7th International Conference on Language Resources and Evaluation, LREC 2010
Citation
Rebholz-Schuhmann, D, Jimeno-Yepes, A.J, van Mulligen, E.M, Kang, N, Kors, J.A, Milward, D, … Hahn, U. (2010). The CALBC Silver Standard Corpus for Biomedical Named Entities - A Study in Harmonizing the Contributions from Four Independent Named Entity Taggers. In Proceedings of the 7th International Conference on Language Resources and Evaluation, LREC 2010 (pp. 568–573). Retrieved from http://hdl.handle.net/1765/103402