pSALSA Session - Sunday, May 22

05/22/2016, 8:30am-5:00pm

See pSALSA program

Session I

8:15-8:30am

Welcome (A. Kalyanaraman, J. Zola)

8:30-9:00am

The divisible load balance problem with shared cost and its application to phylogenetic inference. (C. Scholl, K. Kobert, T. Flouri, A. Stamatakis)

9:00-9:30am

Efficient computation of linkage disequilibria as dense linear algebra operations. (N. Alachiotis, T. Popovici, T.M. Low)

9:30-10:00am

Improving reaction kernel performance in Lattice Microbes: particle-wise propensities and run-time generated code. (M.J. Hallock, Z. Luthey-Schulten)

10:00-10:30am

Coffee Break

Session II

10:30-11:00am

SparkScore: Leveraging Apache Spark for distributed genomic inference. (A. Bahmani, A. Sibley, M. Parsian, K. Owzar, F. Mueller)

11:00-11:30am

A scalable pipeline for transcriptome profiling tasks with on-demand computing clouds. (S. Shams, N. Kim, X. Meng, M.T. Ha, S. Jha, Z. Wang, J. Kim)

11:30-12:00pm

A memory and time scalable parallelization of the Reptile error-correction code. (V. Sachdeva, S. Aluru, D.A. Bader)

12:00-1:30pm

Lunch Break

Keynote and Invited Talks

1:30-2:45pm

Keynote Address, Alex Pothen, The Big Challenges of Big Data in Bioinformatics

2:45-3:30pm

Invited Talk, Aydin Buluc, Parallel de novo Assembly of Complex Genomes via HipMER

3:30-4:00pm

Coffee Break

Session III

4:00-4:30pm

Real-time agent-based modeling simulation with in-situ visualization of complex biological systems: a case study on vocal fold inflammation and healing. (N. Seekhao, C. Shung, J. JaJa, L. Mongeau, N.Y.K. Li-Jessen)

4:30-5:00pm

A novel associative memory based architecture for sequence alignment. (F. Crescioli, M.A. Mirzaei, G. Calderini, G. Marchiori, S. Viret, W. Tromeur, G. Baulieu, G. Gambit)