Rainer Breitling

Orcid: 0000-0001-7173-0922

Affiliations:
  • University of Groningen, Netherlands


According to our database1, Rainer Breitling authored at least 45 papers between 2004 and 2020.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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Online presence:

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Bibliography

2020
Unravelling the γ-butyrolactone network in Streptomyces coelicolor by computational ensemble modelling.
PLoS Comput. Biol., 2020

2018
Selenzyme: enzyme selection tool for pathway design.
Bioinform., 2018

2017
CodonGenie: optimised ambiguous codon design tools.
PeerJ Comput. Sci., 2017

antiSMASH 4.0 - improvements in chemistry prediction and gene cluster boundary identification.
Nucleic Acids Res., 2017

RankProd 2.0: a refactored bioconductor package for detecting differentially expressed features in molecular profiling datasets.
Bioinform., 2017

2015
antiSMASH 3.0 - a comprehensive resource for the genome mining of biosynthetic gene clusters.
Nucleic Acids Res., 2015

TrypanoCyc: a community-led biochemical pathways database for <i>Trypanosoma brucei</i>.
Nucleic Acids Res., 2015

Incorporating peak grouping information for alignment of multiple liquid chromatography-mass spectrometry datasets.
Bioinform., 2015

2014
Pep2Path: Automated Mass Spectrometry-Guided Genome Mining of Peptidic Natural Products.
PLoS Comput. Biol., 2014

A fast algorithm for determining bounds and accurate approximate p-values of the rank product statistic for replicate experiments.
BMC Bioinform., 2014

MetAssign: probabilistic annotation of metabolites from LC-MS data using a Bayesian clustering approach.
Bioinform., 2014

2013
Handling Uncertainty in Dynamic Models: The Pentose Phosphate Pathway in <i>Trypanosoma brucei</i>.
PLoS Comput. Biol., 2013

antiSMASH 2.0 - a versatile platform for genome mining of secondary metabolite producers.
Nucleic Acids Res., 2013

<i>Computation</i>: A New Open Access Journal of Computational Chemistry, Computational Biology and Computational Engineering.
Comput., 2013

mzMatch-ISO: an R tool for the annotation and relative quantification of isotope-labelled mass spectrometry data.
Bioinform., 2013

2012
Dynamic Modelling under Uncertainty: The Case of <i>Trypanosoma brucei</i> Energy Metabolism.
PLoS Comput. Biol., 2012

IDEOM: an Excel interface for analysis of LC-MS-based metabolomics data.
Bioinform., 2012

2011
antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences.
Nucleic Acids Res., 2011

Formal Methods in Molecular Biology (Dagstuhl Seminar 11151).
Dagstuhl Reports, 2011

2010
Biomodel Engineering - From Structure to Behavior.
Trans. Comp. Sys. Biology, 2010

A circuit model of the temporal pattern generator of Caenorhabditis egg-laying behavior.
BMC Syst. Biol., 2010

DiffCoEx: a simple and sensitive method to find differentially coexpressed gene modules.
BMC Bioinform., 2010

2009
designGG: an R-package and web tool for the optimal design of genetical genomics experiments.
BMC Bioinform., 2009

Probabilistic assignment of formulas to mass peaks in metabolomics experiments.
Bioinform., 2009

BioModel Engineering: Its role in Systems Biology and Synthetic Biology.
Proceedings of the Formal Methods in Molecular Biology, 22.02. - 27.02.2009, 2009

09091 Executive Summary - Formal Methods in Molecular Biology.
Proceedings of the Formal Methods in Molecular Biology, 22.02. - 27.02.2009, 2009

09091 Abstracts Collection - Formal Methods in Molecular Biology.
Proceedings of the Formal Methods in Molecular Biology, 22.02. - 27.02.2009, 2009

2008
MetaNetter: inference and visualization of high-resolution metabolomic networks.
Bioinform., 2008

A comparison of meta-analysis methods for detecting differentially expressed genes in microarray experiments.
Bioinform., 2008

A structured approach for the engineering of biochemical network models, illustrated for signalling pathways.
Briefings Bioinform., 2008

An Introduction to BioModel Engineering, Illustrated for Signal Transduction Pathways.
Proceedings of the Membrane Computing - 9th International Workshop, 2008

2007
A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat.
BMC Bioinform., 2007

FIVA: Functional Information Viewer and Analyzer extracting biological knowledge from transcriptome data of prokaryotes.
Bioinform., 2007

Analysis of Tiling Microarray Data by Learning Vector Quantization and Relevance Learning.
Proceedings of the Intelligent Data Engineering and Automated Learning, 2007

Discriminating Microbial Species Using Protein Sequence Properties and Machine Learning.
Proceedings of the Intelligent Data Engineering and Automated Learning, 2007

2006
A lock-and-key model for protein-protein interactions.
Bioinform., 2006

RankProd: a bioconductor package for detecting differentially expressed genes in meta-analysis.
Bioinform., 2006

2005
The Latent Process Decomposition of cDNA Microarray Data Sets.
IEEE ACM Trans. Comput. Biol. Bioinform., 2005

Rank-based Methods as a Non-parametric Alternative of the T-statistic for the Analysis of Biological Microarray Data.
J. Bioinform. Comput. Biol., 2005

Franksum: new feature selection method for protein function prediction.
Int. J. Neural Syst., 2005

GeneRank: Using search engine technology for the analysis of microarray experiments.
BMC Bioinform., 2005

Vector analysis as a fast and easy method to compare gene expression responses between different experimental backgrounds.
BMC Bioinform., 2005

2004
Graph-based iterative Group Analysis enhances microarray interpretation.
BMC Bioinform., 2004

Iterative Group Analysis (iGA): A simple tool to enhance sensitivity and facilitate interpretation of microarray experiments.
BMC Bioinform., 2004

Biologically valid linear factor models of gene expression.
Bioinform., 2004


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