Liu, Y, Schroeder, J, and Schmidt, B (2013).
Musket: a multistage k-mer spectrum based error corrector for Illumina sequence data
Bioinformatics, 29(3):308-315.

Liu, Y, Wirawan, A, and Schmidt, B (2013).
CUDASW++ 3.0: accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions
BMC Bioinformatics, 14(117).

Dang, H and Schmidt, B (2012).
The Sliced COO format for Sparse Matrix-Vector Multiplication on CUDA-enabled GPUs
In: International Conference on Computational Science.

Liu, Y and Schmidt, B (2012).
Evaluation of GPU-based seed generation for computational genomics using Burrows-Wheeler transform
In: 11th IEEE International Workshop on High Performance Computational Biology (HiCOMB 2012), pp. 684-690, IEEE.

Liu, Y and Schmidt, B (2012).
Long read alignment based on maximal exact match seeds
Bioinformatics, 28(18):i318-i324.

Liu, Y, Schmidt, B, and Maskell, DL (2012).
A fast CUDA compatible short read aligner to large genomes
In: GPU Technology Conference 2012 (GTC 2012), Poster.

Liu, Y, Schmidt, B, and Maskell, DL (2012).
CUSHAW: a CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform
Bioinformatics, 28(14):1830-1837.

Nguyen, TD, Schmidt, B, Zheng, Z, and Kwoh, CK (2012).
Large-Scale Clustering of Short Reads for Metagenomics on GPUs
In: Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, ed. by Mourad Elloumi and Albert Y. Zomaya. Wiley-Blackwell, chap. to appear, pp. .

Schmidt, B, Aribowo, H, and Dang, H (2012).
Iterative Sparse Matrix-Vector Multiplication for Accelerating the Block Wiedemann Algorithm over GF(2) on Multi-GPU Systems
Concurrency and Computation: Practice and Experience.

Giraud, M, Schmidt, B, Janot, S, and Varre, JS (2011).
M. Giraud, B. Schmidt, S. Janot, J.S. Varre: Many-core high-performance computing in Bioinformatics
In: Advances in Genomic Sequence Analysis and Pattern Discovery, ed. by Laura Elnitski, Helen Piontkivska, Lonnie R Welch. World Scientific, chap. 8, pp. 179-208.