GBB Nanopore night

From

Nanopore sequencers are now available. These sequencers fit in the palm of your hand, connect to a laptop via USB cable, and yield a human genome’s worth of DNA in reads up to 10000s of basepairs. But what does the data really look like?

GBB nanopore night took place on April 24 at 4pm at the CCBR Black Room. We got to check out the latest in genome sequencing. Jared Simpson (Ontario Institute for Cancer Research) gave a short introduction to nanopore technology after which we analyzed some of the assemblies produced from nanopore data.

What did we find out?

GBB student member Gurdeep Singh found that long homopolymers (>10 nt) in the Nanopore assemblies were inconsistent with the human reference genome. More surprisingly, he found that the latest improvements to the assembler didn't seem to help: they just biased the assembly in the other direction.

Thanks to all who attended.


About Jared Simpson: Jared is a leader in development of assembly and other algorithms for nanopore data. He is currently a bioinformatics PI at OICR, assistant prof in the Department of Computer Science at the University of Toronto and the Computer Science representative on the program committee of the GBB. http://simpsonlab.github.io/

About Nanopore: Oxford Nanopore Technologies, founded in 2005, is a U.K.-based company which is developing and selling nanopore sequencing products for the direct, electronic analysis of single molecules. Learn more at https://nanoporetech.com/

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