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Bernhard Y. Renard

Bernhard Y. Renard

D-Index & Metrics

Computer Science

D-Index
33
Citations
4110
World Ranking
12761
National Ranking
622

Overview

Bernhard Y. Renard is affiliated with the Hasso Plattner Institute in Germany and has an extensive publication record primarily in the fields of Biochemistry, Genetics and Molecular Biology. Their scientific contributions encompass subfields such as Molecular Biology, Spectroscopy, Plant Science, Ecology, and Artificial Intelligence.

Their research topics cover a broad range of areas including:

  • Genomics and Phylogenetic Studies
  • Advanced Proteomics Techniques and Applications
  • Metabolomics and Mass Spectrometry Studies
  • Bacteriophages and microbial interactions
  • Plant Pathogens and Fungal Diseases
  • Mass Spectrometry Techniques and Applications
  • Bioinformatics and Genomic Networks

Among recent notable papers authored or co-authored by Bernhard Y. Renard are:

  • Critical Assessment of Metagenome Interpretation: the second round of challenges, 2022, published in Nature Methods
  • Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows, 2021, published in Nature Communications
  • A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and Prophane, 2020, published in Nature Protocols
  • ganon: precise metagenomics classification against large and up-to-date sets of reference sequences, 2020, published in Bioinformatics
  • Comprehensive evaluation of peptide de novo sequencing tools for monoclonal antibody assembly, 2022, published in Briefings in Bioinformatics

Bernhard Y. Renard collaborates frequently with a number of co-authors including:

  • Jakub M. Bartoszewicz
  • Thilo Muth
  • Melania Nowicka
  • Ferdous Nasri
  • Vitor C. Piro

Their work has been published in a variety of scientific venues, with repeated contributions to:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Zenodo (CERN European Organization for Nuclear Research)
  • Bioinformatics
  • arXiv (Cornell University)
  • Journal of Proteome Research

Best Publications

  • Critical Assessment of Metagenome Interpretation - A benchmark of metagenomics software

    Alexander Sczyrba;Peter Hofmann;Peter Hofmann;Peter Belmann;David Koslicki

  • Docking small peptides remains a great challenge: an assessment using AutoDock Vina

    Robert Rentzsch;Bernhard Y Renard

  • Concise Representation of Mass Spectrometry Images by Probabilistic Latent Semantic Analysis

    Michael Hanselmann;Marc Kirchner;Bernhard Y. Renard;Erika R. Amstalden

  • Toward digital staining using imaging mass spectrometry and random forests.

    Michael Hanselmann;Ullrich Köthe;Marc Kirchner;Bernhard Y. Renard

  • Recursive feature elimination in random forest classification supports nanomaterial grouping

    Aileen Bahl;Aileen Bahl;Bryan Hellack;Mihaela Balas;Anca Dinischiotu

  • Evaluating de novo sequencing in proteomics: already an accurate alternative to database-driven peptide identification?

    Thilo Muth;Bernhard Y Renard

  • NITPICK: peak identification for mass spectrometry data

    Bernhard Y. Renard;Bernhard Y. Renard;Marc Kirchner;Marc Kirchner;Hanno Steen;Judith A. J. Steen

  • Challenges and promise at the interface of metaproteomics and genomics: an overview of recent progress in metaproteogenomic data analysis

    Henning Schiebenhoefer;Tim Van Den Bossche;Stephan Fuchs;Bernhard Y Renard

  • Metaproteomic data analysis at a glance: advances in computational microbial community proteomics

    Thilo Muth;Bernhard Y. Renard;Lennart Martens

  • PaPrBaG: A machine learning approach for the detection of novel pathogens from NGS data

    Carlus Deneke;Robert Rentzsch;Bernhard Y. Renard

  • Metagenomic abundance estimation and diagnostic testing on species level

    Martin S. Lindner;Bernhard Y. Renard

  • When less can yield more - Computational preprocessing of MS/MS spectra for peptide identification.

    Bernhard Y. Renard;Bernhard Y. Renard;Marc Kirchner;Marc Kirchner;Flavio Monigatti;Alexander R. Ivanov

  • ganon: precise metagenomics classification against large and up-to-date sets of reference sequences.

    Vitor Piro;Vitor Piro;Vitor Piro;Temesgen Hailemariam Dadi;Enrico Seiler;Knut Reinert

  • ReadBouncer: precise and scalable adaptive sampling for nanopore sequencing

    Unknown

  • Interpretable detection of novel human viruses from genome sequencing data

    Jakub M Bartoszewicz;Anja Seidel;Bernhard Y Renard

  • DeePaC: predicting pathogenic potential of novel DNA with reverse-complement neural networks.

    Jakub M Bartoszewicz;Jakub M Bartoszewicz;Anja Seidel;Anja Seidel;Robert Rentzsch;Bernhard Y Renard

  • MPA Portable: A Stand-Alone Software Package for Analyzing Metaproteome Samples on the Go

    Thilo Muth;Fabian Kohrs;Robert Heyer;Dirk Benndorf;Dirk Benndorf

  • DUDes: a top-down taxonomic profiler for metagenomics.

    Vitor C. Piro;Vitor C. Piro;Martin S. Lindner;Bernhard Y. Renard

  • MSProGene: integrative proteogenomics beyond six-frames and single nucleotide polymorphisms.

    Franziska Zickmann;Bernhard Y. Renard

  • A Potential Golden Age to Come—Current Tools, Recent Use Cases, and Future Avenues for De Novo Sequencing in Proteomics

    Thilo Muth;Felix Hartkopf;Marc Vaudel;Marc Vaudel;Bernhard Y. Renard

  • Deuteration distribution estimation with improved sequence coverage for HX/MS experiments

    Xinghua Lou;Marc Kirchner;Bernhard Y. Renard;Ullrich Köthe

Frequent Co-Authors

Fred A. Hamprecht
Fred A. Hamprecht Heidelberg University
Andreas Nitsche
Andreas Nitsche Robert Koch Institute
Hanno Steen
Hanno Steen Boston Children's Hospital
Knut Reinert
Knut Reinert Freie Universität Berlin
Tobias Marschall
Tobias Marschall Heinrich Heine University Düsseldorf
Lennart Martens
Lennart Martens Ghent University
Ugur Sahin
Ugur Sahin Johannes Gutenberg University of Mainz
John C. Castle
John C. Castle Monte Rosa Therapeutics
Steven W. Singer
Steven W. Singer Lawrence Berkeley National Laboratory
Edward M. Rubin
Edward M. Rubin Joint Genome Institute

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