Benjamin Schuster-Böckler

@dagams.bsky.social

473 Followers 434 Following

Group leader at the Ludwig Institute for Cancer Research in Oxford. Computational genomics and bioinformatics. Also find me on genomic.social, a free and non-profit Mastodon instance for genomics (@bensb@genomic.social)

Upset plot showing the overlap in CpG positions called by rastair vs DRAGEN and MethylDackel. Rastair calls a substantial number of CpGs that are not reported by either of the other two.

Runtime over input dataset size: lower is better. Rastair is much faster than other tools, and rastair with GPU is the fastest of them all.

Rising sun shining through pine trees at the villa Borghese in Rome

The BSB lab at lunch, sitting around a big wooden table, some people wearing paper crowns

Photo of a previous lecture theatre at the KIT in Amsterdam

barchart that says "problems solved" and a bar of height 1 for hamburger and 0 for chatGPT

Schematic of the hypothesis that polymerase epsilon sometimes incorporates A opposite methyl-C

MMR and POLE deficient tumours have orders of magnitude more C to T mutations than mismatch repair proficient tumours

Plot showing the number of C to T mutations in patients with different cancer types

Spontaneous oxidative deamination as a mechanism of mutagenesis at methylated cytosine

Figure from Adrian Bird's 1980's paper showing enrichment of C>T variants in CpG dinucleotides