klmr.me

About me

Hi. 👋 My name is Konrad.

I’m a senior research engineer at PetaGene.

Before that I was a postdoctoral researcher in Eric Miska’s group (Gurdon Institute). I have a PhD from the University of Cambridge, supervised by John Marioni at the European Bioinformatics Institute (EMBL-EBI).

Here are some of the things I do:

Research

I’m a bioinformatician/geneticist by training and a software engineer by calling. Most of my research was in genomics and the regulation of gene translation in mammals through changes in tRNA abundance and codon usage. My PhD thesis was on “Investigating the link between tRNA and mRNA abundance in mammals”.

Previously I’ve worked in algorithms, in particular implementing high-throughput sequencing read mapping tools, and creating frameworks for the automatic parallelisation of high-performance code on multicore architecture. I have also done work in cell regulatory networks.

Open Source

I contribute prolifically to various Open Source projects. Some of my own most widely used projects are:

To see more of my contributions to Open Source projects, visit my GitHub profile.

Teaching

I have, at various times, taught on the following subjects:

  • High-throughput sequence analysis
  • CS 101 & CS 102
  • Algorithms in bioinformatics
  • Database systems & SQL
  • C++ · VB · Unix/Bash · LATEX · R · Git
  • Basics of data compression

I’m also occasionally active on Stack Overflow, where I’m one of the 0.01% most active contributors of all time.

Selected publications

For more, see my Google Scholar profile. * indicates joint first authors