Currently working on the applications of Single Cell Sequencing techniques to the understanding of early oncogenesis and tumour progression.
With a background in Mathematics and Bioinformatics, I specialise in using Machine Learning to solve Bioinformatics problems but generally enjoy working on novel problems in emerging pluridisciplinary fields (Genomic privacy, Secure computation, Material Informatics…).
D. A. duVerle, S. Yotsukura, S. Nomura, H. Aburatani and K. Tsuda, CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data, BMC Bioinformatics, 17, 363, 2016.
F. Shinkai-Ouchi, S. Koyama, Y. Ono, S. Hata, K. Ojima, M. Shindo, D. duVerle, M. Ueno, F. Kitamura, N. Doi, I. Takigawa, H. Mamitsuka, H. Sorimachi. Predictions of Cleavability of Calpain Proteolysis by Quantitative Structure-Activity Relationship Analysis Using Newly Determined Cleavage Sites and Catalytic Efficiencies of an Oligopeptide Array. Mol Cell Proteomics, Apr;15(4):1262-80, 2016.
A. Terada, D.A. duVerle and K. Tsuda, Significant Pattern Mining with Confounding Variables, 20th Pacific Asia Conference on Knowledge Discovery and Data Mining (PAKDD), pp. 277-289, 2016.
S. Yotsukura, D. duVerle, T. Hancock, Y. Natsume-Kitatani and H. Mamitsuka. Computational recognition for long non-coding RNA (lncRNA): Software and databases. Briefings in Bioinformatics, doi: 10.1093/bib/bbv114, 2016.
D. A. duVerle, S. Kawasaki, Y. Yamada, J. Sakuma and K. Tsuda, Privacy-Preserving Statistical Analysis by Exact Logistic Regression, 2nd International Workshop on Genome Privacy and Security (Genopri’15), pages 7-16, 2015.
H. Sasakawa, H. Harada, D. duVerle, H. Arimura, K. Tsuda and J. Sakuma. Oblivious Evaluation of Non-deterministic Finite Automata with Application to Privacy-Preserving Virus Genome Detection, Proceedings of the 13th ACM Workshop on Privacy in the Electronic Society, pages 21-30, 2014.
D. duVerle, I. Takeuchi, Y. Murakami-Tonami, K. Kadomatsu and K. Tsuda. Discovering Combinatorial Interactions in Survival Data. Bioinformatics, 29(23):3053-3059, 2013.
D. duVerle & H. Mamitsuka, Machine Learning Sequence Classification Techniques: Application To Cysteine Protease Cleavage Prediction, Current Bioinformatics, 2012.
D. duVerle & H. Mamitsuka, A review of statistical methods for prediction of proteolytic cleavage, Briefings in bioinformatics 13 (3), 337-349, 2012.
D. duVerle, Y. Ono, H. Sorimachi, H. Mamitsuka. Calpain Cleavage Prediction Using Multiple Kernel Learning, PloS one, 10.1371/journal.pone.0019035, 2011.
H. Hernault, H. Prendinger, D. duVerle and M. Ishizuka. HILDA: A discourse parser using Support Vector Machine classification, Dialogue and Discourse. An Int'l J, Vol. 1, No. 3, pp. 1-33, 12-2010.12.
D. duVerle, I. Takigawa, Y. Ono, H. Sorimachi, H. Mamitsuka. CaMPDB: a resource for calpain and modulatory proteolysis, Genome informatics. Vol. 22, p. 202, 2010.
D. duVerle & H. Prendinger. A Novel Discourse Parser Based on Support Vector Machine Classification, Proceedings of the 47th Annual Meeting of the Association for Computational Linguistics, Vol. 2, pp. 665–673, 2009.