Alex Bishara

Department of Computer Science
Stanford University

email: abishara (at) cs (dot) stanford (dot) edu


I currently live in São Paulo, Brazil.

Previously, I worked in several specialized areas including: computational genomics, microbiology, and computer architecture. I completed my Ph.D. in Computer Science at Stanford in 2017 and was advised by Serafim Batzoglou. Before that I completed my undergraduate degree in Electrical Engineering and Computer Science (EECS) at UC Berkeley in 2010, and worked for two years at Apple in the Mobile Silicon CPU group.

I also run, cycle, and play tennis.

Publications


High-quality genome sequences of uncultured microbes by assembly of read clouds.
A. Bishara*, E. Moss*, M. Kolmogorov, A. Parada, Z. Weng, A. Sidow, A. Dekas, S. Batzoglou, A. Bhatt.
Nature Biotechnology 2018 Article.

Human-specific NOTCH-like genes in a region linked to neurodevelopmental disorders affect cortical neurogenesis.
I. Fiddes, et al.
Cell 2018 Article.

Genome-wide reconstruction of complex structural variants using read clouds.
N. Spies, Z. Weng, A. Bishara, J. McDaniel, D. Catoe, J. Zook, M. Salit, R. West, S. Batzoglou, A. Sidow.
Nature Methods 2017 Article.

Read clouds uncover variation in complex regions of the human genome.
A. Bishara*, Y. Liu*, Z. Weng, D. Kashef-Haghighi, D. E Neuburger, R. West, A. Sidow, and S. Batzoglou
Genome Research 2015 Article.

Exploring the Tradeoffs between Programmability and Efficiency in Data-Parallel Accelerators.
Y. Lee, R. Avižienis, A. Bishara, R. Xia, D. Lockhart, C. Batten, and K. Asanović.
ACM Transactions on Computer Systems, 2013 and
International Symposium on Computer Architecture (ISCA-2011) 2011.

* denotes joint first author