Abstract

We are about to enter an era of DNA sequencing where one can produce, de novo, a reference-quality genome of any living species for 1,000 EU.  This ability will revolutionize ecology, evolution, and conservation science and effectively mark the beginning of a new exploration of the natural world.

In this tutorial we will present the current state of the art for 3rd-gen long read sequencing and assembly and give an overview of the computational problems and challenges involved in interpreting this data. 

References

  1. E. Myers, ``Efficient Alignment Discovery amongst Noisy Long Reads,'' IProc. Workshop on Algorithms for BioInformatics (WABI, Wroclaw, Poland 2014), 52-67. Also published as Springer-Verlag LNCS #8791.
  2. M.A. Grohme, S. Schloissnig, A. Rozanski, M. Pippel, G. Young, S. Winkler, H. Brandl, I. Henry, A. Dahl, S. Powell, M. Hiller, E.W. Myers, J.C. Rink, ``The Genome of S. mediterranea and the Evolution of Cellular Core Mechanisms,'' Nature, accepted.
  3. C.S. Chin, P. Peluso, F.J. Sedlazeck, M. Nattestad, G.T. Concepcion, A. Clum, C. Dunn, R. O'Malley, R. Figueroa-Balderas, A. Morales-Cruz, G.R. Cramer, M. Delledonne, C. Luo, J.R. Ecker, D. Cantu, R.R. Rank, M.C. Schatz, .``Phased diploid genome assembly with single-molecule real-time sequencing, '' Nature Methods 13,12 (2016):1050-1054.