Publications

Chen Q, Rankine A, Peng Y, Aghaarabi E, Lu Z.  2021.  Benchmarking Effectiveness and Efficiency of Deep Learning Models for Semantic Textual Similarity in the Clinical Domain: Validation Study.. JMIR Med Inform. 9(12):e27386.

Chen Q, Peng Y, Lu Z.  2019.  BioSentVec: creating sentence embeddings for biomedical texts. IEEE International Conference on Healthcare Informatics (ICHI).

Doğan RIslamaj, Chatr-aryamontri A, Kim S, Wei C-H, Peng Y, Comeau D, Lu Z.  2017.  BioCreative VI Precision Medicine Track: creating a training corpus for mining protein-protein interactions affected by mutations. BioNLP 2017. :171–175.

Peng Y, Arighi C, Wu CH, Vijay-Shanker K.  2016.  BioC-compatible full-text passage detection for protein-protein interactions using extended dependency graph. Database (Oxford). 2016

Kim S, Doğan RIslamaj, Chatr-Aryamontri A, Chang CS, Oughtred R, Rust J, Batista-Navarro R, Carter J, Ananiadou S, Matos S et al..  2016.  BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID. Database (Oxford). 2016

Comeau DC, Batista-Navarro RTheresa, Dai H-J, Doğan RIslamaj, Yepes AJimeno, Khare R, Lu Z, Marques H, Mattingly CJ, Neves M et al..  2014.  BioC interoperability track overview. Database (Oxford). 2014

Comeau DC, Doğan RIslamaj, Ciccarese P, Cohen KBretonnel, Krallinger M, Leitner F, Lu Z, Peng Y, Rinaldi F, Torii M et al..  2013.  BioC: a minimalist approach to interoperability for biomedical text processing. Database (Oxford). 2013:bat064.