Erik van Nimwegen

According to our database1, Erik van Nimwegen authored at least 22 papers between 1999 and 2017.

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

Timeline

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PhD thesis 
Other 

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Bibliography

2017
Automated incorporation of pairwise dependency in transcription factor binding site prediction using dinucleotide weight tensors.
PLoS Computational Biology, 2017

2016
Inferring Contacting Residues within and between Proteins: What Do the Probabilities Mean?
PLoS Computational Biology, 2016

2014
A promoter-level mammalian expression atlas.
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Nature, 2014

Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support.
Nucleic Acids Research, 2014

Optimal Joint Segmentation and Tracking of Escherichia Coli in the Mother Machine.
Proceedings of the Bayesian and grAphical Models for Biomedical Imaging, 2014

2013
Nucleosome Free Regions in Yeast Promoters Result from Competitive Binding of Transcription Factors That Interact with Chromatin Modifiers.
PLoS Computational Biology, 2013

SwissRegulon, a database of genome-wide annotations of regulatory sites: recent updates.
Nucleic Acids Research, 2013

2012
Corrigendum: DNA-binding factors shape the mouse methylome at distal regulatory regions.
Nature, 2012

MotEvo: integrated Bayesian probabilistic methods for inferring regulatory sites and motifs on multiple alignments of DNA sequences.
Bioinformatics, 2012

2011
Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation.
Nucleic Acids Research, 2011

2010
Disentangling Direct from Indirect Co-Evolution of Residues in Protein Alignments.
PLoS Computational Biology, 2010

2007
SwissRegulon: a database of genome-wide annotations of regulatory sites.
Nucleic Acids Research, 2007

Finding regulatory elements and regulatory motifs: a general probabilistic framework.
BMC Bioinformatics, 2007

Correction: Inference of miRNA targets using evolutionary conservation and pathway analysis.
BMC Bioinformatics, 2007

Inference of miRNA targets using evolutionary conservation and pathway analysis.
BMC Bioinformatics, 2007

2006
A Bayesian Algorithm for Reconstructing Two-Component Signaling Networks.
Proceedings of the Algorithms in Bioinformatics, 6th International Workshop, 2006

2005
PhyloGibbs: A Gibbs Sampling Motif Finder That Incorporates Phylogeny.
PLoS Computational Biology, 2005

Identification of clustered microRNAs using an ab initio prediction method.
BMC Bioinformatics, 2005

2004
PhyloGibbs: A Gibbs Sampler Incorporating Phylogenetic Information.
Proceedings of the Regulatory Genomics, 2004

2003
A probabilistic method to detect regulatory modules.
Proceedings of the Eleventh International Conference on Intelligent Systems for Molecular Biology, June 29, 2003

2001
Optimizing Epochal Evolutionary Search: Population-Size Dependent Theory.
Machine Learning, 2001

1999
Statistical Dynamics of the Royal Road Genetic Algorithm.
Theor. Comput. Sci., 1999


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