DEQOR: a web-based tool for the design and quality control of siRNAs. - Andreas Henschel; Frank Buchholz; Bianca Habermann (Nucleic Acids Res., 2004)

Sealife: A Semantic Grid Browser for the Life Sciences Applied to the Study of Infectious Diseases. - Michael Schroeder 001; Albert Burger; Patty Kostkova; Robert Stevens 001; Bianca Habermann; Rose Dieng-Kuntz (HealthGrid, 2006)

ProFAT: a web-based tool for the functional annotation of protein sequences. - Charles Richard Bradshaw; Vineeth Surendranath; Bianca Habermann (BMC Bioinform., 2006)

Mining for Patterns of Semantic Link Usage: Do Domain Users Actually Like Semantic Browsing? - Ed de Quincey; Helen Oliver 001; Patty Kostkova; Gawesh Jawaheer; Gemma Madle; Gayo Diallo; Dimitra Alexopoulou; Michael Schroeder 001; Bianca Habermann; Khaled Khelif; Simon Jupp; Robert Stevens 001 (Web Intelligence/IAT Workshops, 2009)

A user-centred evaluation framework for the Sealife semantic web browsers. - Helen Oliver 001; Gayo Diallo; Ed de Quincey; Dimitra Alexopoulou; Bianca Habermann; Patty Kostkova; Michael Schroeder 001; Simon Jupp; Khaled Khelif; Robert Stevens 001; Gawesh Jawaheer; Gemma Madle (BMC Bioinform., 2009)

SeLOX - a locus of recombination site search tool for the detection and directed evolution of site-specific recombination systems. - Vineeth Surendranath; Janet Chusainow; Joachim Hauber; Frank Buchholz; Bianca Habermann (Nucleic Acids Res., 2010)

Comparative RNA-seq Analysis in the Unsequenced Axolotl: The Oncogene Burst Highlights Early Gene Expression in the Blastema. - Ron M. Stewart; Cynthia Alexander Rascón; Shulan Tian; Jeff Nie; Chris Barry; Li-Fang Chu; Hamisha Ardalani; Ryan J. Wagner; Mitchell D. Probasco; Jennifer M. Bolin; Ning Leng; Srikumar Sengupta; et al. (PLoS Comput. Biol., 2013)

morFeus: a web-based program to detect remotely conserved orthologs using symmetrical best hits and orthology network scoring. - Ines Wagner; Michael Volkmer; Malvika Sharan; Jose M. Villaveces; Felix Oswald; Vineeth Surendranath; Bianca Habermann (BMC Bioinform., 2014)

Merging and scoring molecular interactions utilising existing community standards: tools, use-cases and a case study. - Jose M. Villaveces; Rafael C. Jiménez; Pablo Porras; Noemi del-Toro; Margaret J. Duesbury; Marine Dumousseau; Sandra E. Orchard; H. Choi; Peipei Ping; N. C. Zong; Manor Askenazi; Bianca Habermann; et al. (Database J. Biol. Databases Curation, 2015)

HH-MOTiF: de novo detection of short linear motifs in proteins by Hidden Markov Model comparisons. - Roman Prytuliak; Michael Volkmer; Markus Meier; Bianca Habermann (Nucleic Acids Res., 2017)

Integrative analysis and machine learning on cancer genomics data using the Cancer Systems Biology Database (CancerSysDB). - Rasmus Krempel; Pranav Kulkarni; Annie Yim; Ulrich Lang 002; Bianca Habermann; Peter Frommolt (BMC Bioinform., 2018)

SLALOM, a flexible method for the identification and statistical analysis of overlapping continuous sequence elements in sequence- and time-series data. - Roman Prytuliak; Friedhelm Pfeiffer; Bianca Habermann (BMC Bioinform., 2018)

The mitoXplorer 2.0 update: integrating and interpreting mitochondrial expression dynamics within a cellular context. - Fabio Marchiano; Margaux Haering; Bianca Hermine Habermann (Nucleic Acids Res., 2022)

Phasik: a Python package to identify system states in partially temporal networks. - Maxime Lucas; Alex Townsend-Teague; Matteo Neri; Simone Poetto; Arthur Morris; Bianca Habermann; Laurent Tichit (J. Open Source Softw., 2023)

MechanoProDB: a web-based database for exploring the mechanical properties of proteins. - Ismahene Mesbah; Bianca Habermann; Felix Rico (Database J. Biol. Databases Curation, 2024)