Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data. - Jana Hertel; Peter F. Stadler (ISMB (Supplement of Bioinformatics), 2006)

SnoReport: computational identification of snoRNAs with unknown targets. - Jana Hertel; Ivo L. Hofacker; Peter F. Stadler (Bioinform., 2008)

Structured non-coding RNAs - prediction, comparison, annotation. - Jana Hertel (2009)

Vergleichende Genomik nicht-kodierender RNA. - Jana Hertel (Ausgezeichnete Informatikdissertationen, 2009)

Evidence for human microRNA-offset RNAs in small RNA sequencing data. - David Langenberger; Clara Bermudez-Santana; Jana Hertel; Steve Hoffmann; Philipp Khaitovich; Peter F. Stadler (Bioinform., 2009)

RNAsnoop: efficient target prediction for H/ACA snoRNAs. - Hakim Tafer; Stephanie Kehr; Jana Hertel; Ivo L. Hofacker; Peter F. Stadler (Bioinform., 2010)

MicroRNA or Not MicroRNA? - David Langenberger; Sebastian Bartschat; Jana Hertel; Steve Hoffmann; Hakim Tafer; Peter F. Stadler (BSB, 2011)

snoStrip: a snoRNA annotation pipeline. - Sebastian Bartschat; Stephanie Kehr; Hakim Tafer; Peter F. Stadler; Jana Hertel (Bioinform., 2014)

SnoReport 2.0: new features and a refined Support Vector Machine to improve snoRNA identification. - João Victor de Araújo Oliveira; Fabrizio Costa; Rolf Backofen; Peter F. Stadler; Maria Emília Telles Walter; Jana Hertel (BMC Bioinform., 2016)

Towards a Consistent, Quantitative Evaluation of MicroRNA Evolution. - Ali M. Yazbeck; Kifah R. Tout; Peter F. Stadler; Jana Hertel (J. Integr. Bioinform., 2017)

uap: reproducible and robust HTS data analysis. - Christoph Kämpf; Michael Specht; Alexander Scholz; Sven-Holger Puppel; Gero Doose; Kristin Reiche; Jana Schor; Jörg Hackermüller (BMC Bioinform., 2019)

A probabilistic version of Sankoff's maximum parsimony algorithm. - Gábor Balogh; Stephan H. Bernhart; Peter F. Stadler; Jana Schor (J. Bioinform. Comput. Biol., 2020)

AI for predicting chemical-effect associations at the chemical universe level - deepFPlearn. - Jana Schor; Patrick Scheibe; Matthias Bernt; Wibke Busch; Chih Lai; Jörg Hackermüller (Briefings Bioinform., 2022)

deepFPlearn +: enhancing toxicity prediction across the chemical universe using graph neural networks. - Kyriakos Soulios; Patrick Scheibe; Matthias Bernt; Jörg Hackermüller; Jana Schor (Bioinform., 2023)

Automated curation of spatial metadata in environmental monitoring data. - Ilhan Mutlu; Jörg Hackermüller; Jana Schor (Ecol. Informatics, 2025)