Felix Kallenborn obtained his PhD in Computer Science from Johannes Gutenberg University Mainz.

2026

Schmidt, B., Kallenborn, F., Wichmann, A., et al. (2026). gpuPairHMM: High-Speed Pair-HMM Forward Algorithm for DNA Variant Calling on GPUs. IEEE Transactions on Computational Biology and Bioinformatics, 1-8. DOI

2025

Müller, A., Wichmann, A., Kallenborn, F., et al. (2025). Improved Metagenomic Analysis for All-Food-Sequencing with AFS-MetaCache2: Illumina vs. Nanopore. In openRxiv. DOI
Kallenborn, F., Dabbaghie, F., Steinegger, M., Schmidt, B. (2025). Accelign: a GPU-based Library for Accelerating Pairwise Sequence Alignment. In openRxiv. DOI
Piechotta, M., Guo, W., Naarmann-de Vries, I. S., et al. (2025). QutRNA2: Robust tRNA modification discovery from Nanopore direct tRNA sequencing. In openRxiv. DOI
Kallenborn, F., Chacon, A., Hundt, C., et al. (2025). GPU-accelerated homology search with MMseqs2. NATURE METHODS, 22(10), 2024-2027. DOI Author/Publisher URL
Mueller, A., Wichmann, A., Kallenborn, F., et al. (2025). RMapAlign3N: fast mapping of 3N-Reads. BIOINFORMATICS ADVANCES, 5(1). DOI Author/Publisher URL

2024

Schmidt, B., Kallenborn, F., Wichmann, A., et al. (2024). gpuPairHMM: High-speed Pair-HMM Forward Algorithm for DNA Variant Calling on GPUs. Author/Publisher URL
Kallenborn, F., Chacon, A., Hundt, C., et al. (2024). GPU-accelerated homology search with MMseqs2. In openRxiv. DOI
Schmidt, B., Kallenborn, F., Chacon, A., Hundt, C. (2024). CUDASW++4.0: ultra-fast GPU-based Smith-Waterman protein sequence database search. BMC BIOINFORMATICS, 25(1). DOI Author/Publisher URL
Kallenborn, F., Schmidt, B. (2024). CAREx: context-aware read extension of paired-end sequencing data. BMC BIOINFORMATICS, 25(1). DOI Author/Publisher URL
Kallenborn, F. (2024). High-performance processing of next-generation sequencing data on CUDA-enabled GPUs (B. Schmidt and A. Hildebrandt, eds.) [PhD Thesis]. DOI Author/Publisher URL

2023

Schmidt, B., Kallenborn, F., Chacon, A., and Hundt, C. (2023). CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search. In openRxiv. DOI
Yan, L., Yin, Z., Zhang, H., et al. (2023). RabbitQCPlus 2.0: More efficient and versatile quality control for sequencing data. METHODS, 216, 39-50. DOI Author/Publisher URL

2022

Kallenborn, F., Cascitti, J., and Schmidt, B. (2022). CARE 2.0: reducing false-positive sequencing error corrections using machine learning. BMC BIOINFORMATICS, 23(1). DOI Author/Publisher URL

2020

Kallenborn, F., Hildebrandt, A., and Schmidt, B. (2020). CARE: Context-Aware Sequencing Read Error Correction. Bioinformatics.

2019

Kallenborn, F., Hundt, C., Boeser, S., and Schmidt, B. (2019). Massively parallel computation of atmospheric neutrino oscillations on CUDA-enabled accelerators. COMPUTER PHYSICS COMMUNICATIONS, 234, 235-244. DOI Author/Publisher URL

Lecture / exercise

Lab Course

WiSe 2024/25

Lecture / exercise

WiSe 2022/23

Lecture / exercise

SoSe 2020