Fast accessibility-based prediction of RNA-RNA interactions. - Hakim Tafer; Fabian Amman; Florian Eggenhofer; Peter F. Stadler; Ivo L. Hofacker (Bioinform., 2011)

RNA Folding Algorithms with G-Quadruplexes. - Ronny Lorenz; Stephan H. Bernhart; Fabian Externbrink; Jing Qin 006; Christian Höner zu Siederdissen; Fabian Amman; Ivo L. Hofacker; Peter F. Stadler (BSB, 2012)

The Trouble with Long-Range Base Pairs in RNA Folding. - Fabian Amman; Stephan H. Bernhart; Gero Doose; Ivo L. Hofacker; Jing Qin 006; Peter F. Stadler; Sebastian Will (BSB, 2013)

2D Meets 4G: G-Quadruplexes in RNA Secondary Structure Prediction. - Ronny Lorenz; Stephan H. Bernhart; Jing Qin 006; Christian Höner zu Siederdissen; Andrea Tanzer; Fabian Amman; Ivo L. Hofacker; Peter F. Stadler (IEEE ACM Trans. Comput. Biol. Bioinform., 2013)

Comparative Detection of Processed Small RNAs in Archaea. - Christian Höner zu Siederdissen; Sarah Berkemer; Fabian Amman; Axel Wintsche; Sebastian Will; Sonja J. Prohaska; Peter F. Stadler (IWBBIO, 2014)

TSSAR: TSS annotation regime for dRNA-seq data. - Fabian Amman; Michael T. Wolfinger; Ronny Lorenz; Ivo L. Hofacker; Peter F. Stadler; Sven Findeiß (BMC Bioinform., 2014)

Accurate mapping of tRNA reads. - Anne Hoffmann 002; Jörg Fallmann; Elisa Vilardo; Mario Mörl; Peter F. Stadler; Fabian Amman (Bioinform., 2018)

VirPool: model-based estimation of SARS-CoV-2 variant proportions in wastewater samples. - Askar Gafurov; Andrej Baláz; Fabian Amman; Kristína Borsová; Viktória Cabanová; Boris Klempa; Andreas Bergthaler; Tomás Vinar; Brona Brejová (BMC Bioinform., 2022)

WAVES (Web-based tool for Analysis and Visualization of Environmental Samples) - a web application for visualization of wastewater pathogen sequencing results. - Petr Triska; Fabian Amman; Lukas Endler; Andreas Bergthaler (Bioinform., 2023)