Primary references for the CRAFT corpus

Overview

Cohen, K. B., Verspoor, K., Fort, K., Funk, C., Bada, M., Palmer, M., & Hunter, L. E. (2017). The Colorado richly annotated full text (CRAFT) corpus: multi-model annotation in the biomedical domain. In Handbook of Linguistic Annotation (pp. 1379-1394). Springer, Dordrecht. [link] [cited by]

Concept annotation

For details of the concept annotations and citation, please see:
Bada, M., Eckert, M., Evans, D., Garcia, K., Shipley, K., Sitnikov, D., Baumgartner Jr., W. A., Cohen, K. B., Verspoor, K., Blake, J. A., and Hunter, L. E. (2012) Concept annotation in the CRAFT corpus. BMC Bioinformatics 12:161. [link] [cited by]

For an overview of the concept annotation guidelines, please see:
Bada, M., Eckert, M., Palmer, M., and Hunter, L.E. (2010) An overview of the CRAFT annotation guidelines. Proceedings of the Fourth Linguistic Annotation Workshop, ACL 2010, pp. 207-211. [link] [cited by]

For details of the Uberon anatomical annotations, please see:
Bada, M., Vasilevsky, N., Baumgartner Jr., W.A., Haendel, M., and Hunter, L.E. (2017) Gold-standard ontology-based anatomical annotation in the CRAFT Corpus. Database, Volume 2017, bax087. [link]

For evaluation of concept recognition tools on the concept annotations, please see:
Funk, C., Baumgartner, W.A., Garcia, B., Roeder, C., Bada, M., Cohen, K.B., Hunter, L.E., and Verspoor, K. (2014) Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters. BMC Bioinformatics 15:59. [link] [cited by]

Coreference annotation

For details of the coreference annotations, please see:
Cohen, K.B., Lanfranchi, A., Choi, M.J., Bada, M., Baumgartner Jr., W.A., Panteleyeva, N., Verspoor, K., Palmer, M., and Hunter, L.E. (2017) Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles. BMC Bioinformatics 18:372. [link] [cited by]

Structural annotation

The following article explores syntactic tool performance over CRAFT:
Verspoor, K., Cohen, K.B., Lanfranchi, A., Warner, C., Johnson, H.L., Roeder, C., Choi, J.D., Funk, C., Malenkiy, Y., Eckert, M., Xue, N., Baumgartner Jr., W.A., Bada, M., Palmer, M., Hunter L.E. (2012) A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools. BMC Bioinformatics 13:207. [link] [cited by]