Computational techniques to analyze pangenome evolution

2021-08-12 00:00:00 +0000 UTC
In this talk I give an update on my work towards advancing bioinformatic tools to understand pangenomes

Physical aspects of sequencing data

2020-02-11 00:00:00 +0000 UTC
A job talk

Observing bacterial pathogen evolution with long read sequencing

2019-10-21 00:00:00 +0000 UTC
A talk aimed at a general purpose scientific audience.

Basel Life 2019: Flash Talk

2019-09-09 00:00:00 +0000 UTC
In this talk I advertise our poster for our pan-genomic graph alignment algorithm

BIRS Oaxaca 2019: Observing bacterial pathogen evolution with long read sequencing

2019-08-17 00:00:00 +0000 UTC
In this talk I discuss our continued progress in producing a computationally scalable approach to a graph alignment algorithm

APS March Meeting 2019: Tracking evolution of pathogenetic bacteria and AMR at the plasmid level

2019-03-01 00:00:00 +0000 UTC
Microbial AMR evolves primarily due to horizontal gene transfer arising from mobile gene elements. However most quantitative models of evolution consider a completely different regime of evolution: a population in a static environment with competing, segregating mutations arising atop a static background. A major impediment to theoretical understanding is we simply lack the correct degrees of freedom that evolution acts on. In this talk, I present a first step towards this direction.

SMBE Satellite Workshop: Tracking pathogenic bacteria and AMR at the plasmid,genome, and pan-genome level

2018-11-05 00:00:00 +0000 UTC
Here I report on the results of an in-depth sequencing analysis of Carbapenemase producing bacteria isolated in Basel over the last decade using both ONT and Illumina technology
Neher Lab