Mass Analysis Peptide Sequence Prediction (MAPSP). - Martin Eisenacher; Jürgen de Braaf; Simone König (Bioinform., 2006)

Proteomics Data Collection (ProDaC): Publishing and Collecting Proteomics Data Sets in Public Repositories Using Standard Formats. - Christian Stephan; Martin Eisenacher; Michael Kohl; Helmut E. Meyer (Proteome Bioinformatics, 2010)

Search and Decoy: The Automatic Identification of Mass Spectra. - Martin Eisenacher; Michael Kohl; Michael Turewicz; Markus-Hermann Koch; Julian Uszkoreit; Christian Stephan (Quantitative Methods in Proteomics, 2012)

Important Issues in Planning a Proteomics Experiment: Statistical Considerations of Quantitative Proteomic Data. - Katharina Podwojski; Christian Stephan; Martin Eisenacher (Quantitative Methods in Proteomics, 2012)

Ontological analysis of controlled vocabularies used in PSI/MSI supported XML standards. - Daniel Schober; Gerhard Mayer; Annick Moing; Martin Eisenacher; Steffen Neumann (GI-Jahrestagung, 2013)

The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary. - Gerhard Mayer; Luisa Montecchi-Palazzi; David Ovelleiro; Andrew R. Jones; Pierre-Alain Binz; Eric W. Deutsch; Matthew Chambers; Marius Kallhardt; Fredrik Levander; James Shofstahl; Sandra E. Orchard; Juan Antonio Vizcaíno; et al. (Database J. Biol. Databases Curation, 2013)

Development of data representation standards by the human proteome organization proteomics standards initiative. - Eric W. Deutsch; Juan P. Albar; Pierre-Alain Binz; Martin Eisenacher; Andrew R. Jones; Gerhard Mayer; Gilbert S. Omenn; Sandra E. Orchard; Juan Antonio Vizcaíno; Henning Hermjakob (J. Am. Medical Informatics Assoc., 2015)

Poster abstracts of GCB 2015. - Martin Eisenacher; Jörg Rahnenführer; Axel Mosig; Sven Rahmann (PeerJ Prepr., 2015)

Invited presentations, junior research groups and research highlights at GCB 2015. - Axel Mosig; Jörg Rahnenführer; Martin Eisenacher; Sven Rahmann (PeerJ Prepr., 2015)

PAA: an R/bioconductor package for biomarker discovery with protein microarrays. - Michael Turewicz; Maike Ahrens; Caroline May; Katrin Marcus; Martin Eisenacher (Bioinform., 2016)

A generally applicable lightweight method for calculating a value structure for tools and services in bioinformatics infrastructure projects. - Gerhard Mayer; Christian Quast; Janine Felden; Matthias Lange 001; Manuel Prinz; Alfred Pühler; Chris Lawerenz; Uwe Scholz; Frank Oliver Glöckner; Wolfgang Müller 001; Katrin Marcus; Martin Eisenacher (Briefings Bioinform., 2019)

The PRIDE database and related tools and resources in 2019: improving support for quantification data. - Yasset Pérez-Riverol; Attila Csordas; Jingwen Bai 003; Manuel Bernal Llinares; Suresh Hewapathirana; Deepti Jaiswal Kundu; Avinash Inuganti; Johannes Griss; Gerhard Mayer; Martin Eisenacher; Enrique Pérez; Julian Uszkoreit; et al. (Nucleic Acids Res., 2019)

Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases. - Gerhard Mayer; Wolfgang Müller 001; Karin Schork; Julian Uszkoreit; Andreas Weidemann; Ulrike Wittig; Maja Rey; Christian Quast; Janine Felden; Frank Oliver Glöckner; Matthias Lange 001; Daniel Arend; et al. (Briefings Bioinform., 2021)

The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences. - Yasset Pérez-Riverol; Jingwen Bai 003; Chakradhar Bandla; David García-Seisdedos; Suresh Hewapathirana; Selvakumar Kamatchinathan; Deepti Jaiswal Kundu; Ananth Prakash; Anika Frericks-Zipper; Martin Eisenacher; Mathias Walzer; Shengbo Wang; et al. (Nucleic Acids Res., 2022)

ProtGraph: a tool for the quick and comprehensive exploration and exploitation of the peptide search space derived from protein sequence databases using graphs. - Dominik Lux; Katrin Marcus-Alic; Martin Eisenacher; Julian Uszkoreit (Briefings Bioinform., 2024)