Pfam is a database of protein families that currently contains 7973 entries (release 18.0). A
recent development in Pfam has enabled the grouping of related families into clans. Pfam …

Cancer genome sequencing provides the first direct information on how mutation rates vary
across the human genome in somatic cells 1 , 2 , 3 , 4 , 5 , 6 , 7 . Testing diverse genetic and …

Bisulfite sequencing has been the gold standard for mapping DNA modifications including 5-methylcytosine
(5mC) and 5-hydroxymethylcytosine (5hmC) for decades 1 , 2 , 3 – 4 . …

Background Profile Hidden Markov Models (pHMMs) are a widely used tool for protein
family research. Up to now, however, there exists no method to visualize all of their central …

Decades of research have shown that mutations in the p53 stress response pathway affect
the incidence of diverse cancers more than mutations in other pathways. However, most …

Extracellular protein–protein interactions are essential for both intercellular communication
and cohesion within multicellular organisms. Approximately a fifth of human genes encode …

We present a novel method that combines protein structure information with protein interaction
data to identify residues that form part of an interaction interface. Our prediction method …

This unit introduces the concept of hidden Markov models in computational biology. It describes
them using simple biological examples, requiring as little mathematical knowledge as …

Background DNA replication plays an important role in mutagenesis, yet little is known about
how it interacts with other mutagenic processes. Here, we use somatic mutation signatures…

Multimodal, genome-wide characterization of epigenetic and genetic information in
circulating cell-free DNA (cfDNA) could enable more sensitive early cancer detection, but it is …