Ben J. Raphael's Publications
2007
Agler, J., Harland, J., and Raphael, B. Classical Function Theory, Operator Dilation Theory and Machine Computation on Multiply-Connected Domains. Memoirs of the American Mathematical Society (2007).
Corona, E., Raphael, B., and Eskin, E. Identifying Deletion Polymorphisms from Haplotype Data. In Proceedings of the 11Th Annual International Conference on Research in Computational Biology (RECOMB 2007) (2007).
2006
Chaisson, M., Raphael, B., and Pevzner, P. Micro-inversions in Mammalian Evolution. Proceedings of the National Academy of Science 103, 52 (2006), 19824-19829. [ pdf ]
Jones, N., Zhi, D., and Raphael, B. AliWABA: Alignment on the Web through an A-Bruijn Approach. Nucleic Acids Research 34 (Jul 2006), 613-616. [ pdf ]
Volik, S., Raphael, B., and et al. Decoding the Fine-scale Architecture of a Breast Cancer Genome and Transcriptome. Genome Research 16, 3 (2006), 394-404. [ pdf ]
Yooseph, S., Sutton, G., Rusch, D., Halpern, A., Williamson, S., Remington, K., Eisen, J., Heidelberg, K., Manning, G., Li, W., Jaroszewski, L., Cieplak, P., Miller, C., Li, H., Mashiyama, S., Joachimiak, M., van Belle, C., Chandonia, J., Soergel, D., Zhai, Y., Natarajan, K., Lee, S., Raphael, B., Bafna, V., Friedman, R., Brenner, S., Godzik, A., Eisenberg, D., Dixon, J., Taylor, S., Strausberg, R., Frazier, M., and Venter, J. The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families. PLOS Biology (2006).
Zhi, D., Raphael, B., Price, A., Tang, H., and Pevzner, P. Identifying Repeat Domains in Large Genomes. Genome Biology 7, 1 (2006), R7. [ pdf ]
2004
Raphael, B., Zhi, D., Tang, H., and Pevzner, P. A Novel Method for Multiple Alignment of Sequences with Repeated and Shuffled Elements. Genome Research 14, 11 (2004), 2336-2346. [ pdf ]
Raphael, B., and Pevzner, P. Reconstructing Tumor Amplisomes. Bioinformatics 20 (2004), 265-273. [ pdf ]
Raphael, B., Liu, L., and Varghese, G. A Uniform Projection Method for Motif Discovery in DNA Sequences. IEEE Transactions on Computational Biology and Bioinformatics 1, 2 (2004), 91-94. [ pdf ]
2003
Raphael, B., Volik, S., Collins, C., and Pevzner, P. Reconstructing Tumor Genome Architectures. Bioinformatics 19 (2003), 162-171. [ pdf ]
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