Advances in transcriptomics have provided an exceptional opportunity to study functional
implications of the genetic variability. Technologies such as RNA-Seq have emerged as …

We present a novel method to measure the local GC-content bias in genomes and a survey
of published fungal species. The method, enacted as “OcculterCut”(https://sourceforge …

GeMoMa is a homology-based gene prediction program that predicts gene models in target
species based on gene models in evolutionary related reference species. GeMoMa utilizes …

Motivation: Gene finding in eukaryotic genomes is notoriously difficult to automate. The task
is to design a work flow with a minimal set of tools that would reach state-of-the-art …

Plant terrestrialization brought forth the land plants (embryophytes). Embryophytes account
for most of the biomass on land and evolved from streptophyte algae in a singular event …

Aspergillus fumigatus is a deadly agent of human fungal disease where virulence
heterogeneity is thought to be at least partially structured by genetic variation between …

Background Genome annotation is of key importance in many research questions. The
identification of protein-coding genes is often based on transcriptome sequencing data, ab …

Parasexuality contributes to diversity and adaptive evolution of haploid (monokaryotic) fungi.
However, non-sexual genetic exchange mechanisms are not defined in dikaryotic fungi …

Sclerotinia sclerotiorum is a phytopathogenic fungus with over 400 hosts including
numerous economically important cultivated species. This contrasts many economically …

Background The draft genome assemblies produced by new sequencing technologies
present important challenges for automatic gene prediction pipelines, leading to less …