Florian Eggenhofer

The paper uses complementary Ribo-seq methods to map the translatome of Campylobacter jejuni, identifying novel small open reading frames and refining gene annotations.

The paper benchmarks ORF prediction tools for bacterial Ribo-seq data, finding DeepRibo performs well but none detect all novel sORFs with high sensitivity.

HRIBO is a workflow for analyzing bacterial Ribo-seq data to discover novel ORFs, using annotation-independent methods and integrating additional features for prioritization.

The paper introduces a workflow for identifying functional upstream open reading frames (uORFs) using ribosome profiling data and provides a human uORF annotation file.

Bioconda provides a sustainable, comprehensive distribution of bioinformatics software using Conda for reproducible analysis across platforms.

ViennaNGS provides Perl modules to build efficient NGS analysis pipelines with tools for data processing, read mapping, RNA abundance normalization, and integration with UCSC genome browser.