Erik van Nimwegen

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	All	Since 2016
Citations	15453	6443
h-index	51	32
i10-index	86	67

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Co-authors

Mihaela ZavolanProfessor of Computational Biology, Biozentrum, University of BaselVerified email at unibas.ch
Piotr J BalwierzPostdoctoral Researcher, Imperial College LondonVerified email at imperial.ac.uk
James CrutchfieldProfessor of Physics, University of California at DavisVerified email at ucdavis.edu
Lukas BurgerResearch Associate, Friedrich Miescher Institute for Biomedical ResearchVerified email at fmi.ch
Robert IvanekHead of Bioinformatics at the Department of Biomedicine, University of BaselVerified email at unibas.ch
Dirk SchübelerSenior Groupleader, Friedrich Miescher Institute for Biomedical Research, Basel, SwitzerlandVerified email at fmi.ch
Eric SiggiaRockefeller UniversityVerified email at cornell.edu
Martijn HuynenCMBI, Radboud University Medical CentreVerified email at cmbi.ru.nl
Ionas ErbCentre for Genomic Regulation (CRG), BarcelonaVerified email at crg.eu
Carninci PieroRIKEN IMS (Yokohama, JP) and Human Technopole (Milan, IT)Verified email at postman.riken.jp
Nacho MolinaIGBMC - CNRS - INSERMVerified email at igbmc.fr
Carsten O. DaubAssociate Professor, Karolinska InstitutetVerified email at ki.se
Olin SilanderSenior Lecturer, Massey University, New ZealandVerified email at massey.ac.nz
Nikolaus RajewskyProfessor, Systems Biology, Max Delbruck Center for Molecular Medicine, BerlinVerified email at mdc-berlin.de
Jean HausserKarolinska Institutet & SciLifeLabVerified email at ki.se
Christian BeiselHead Genomics Facility Basel, ETH ZurichVerified email at bsse.ethz.ch
Christoph HandschinUniversity of Basel, BiozentrumVerified email at unibas.ch
Edward YangInstructor in Radiology, Boston Children's HospitalVerified email at childrens.harvard.edu
Andreas R. GruberPaperpile LLCVerified email at paperpile.com
Alistair ForrestHead of Systems Biology and Genomics, Harry Perkins Institute of Medical ResearchVerified email at perkins.uwa.edu.au

Erik van Nimwegen

Professor of computational systems biology, Biozentrum, University of Basel

Verified email at unibas.ch - Homepage

computational biology genomics systems biology transcription regulation genome evolution


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The transcriptional landscape of the mammalian genome P Carninci, T Kasukawa, S Katayama, J Gough, MC Frith, N Maeda, ... science 309 (5740), 1559-1563, 2005	3478	2005
DNA-binding factors shape the mouse methylome at distal regulatory regions MB Stadler, R Murr, L Burger, R Ivanek, F Lienert, A Schöler, ... Nature 480 (7378), 490-495, 2011	1140	2011
A promoter-level mammalian expression atlas Fantom Consortium Nature 507 (7493), 462, 2014	1131	2014
An atlas of combinatorial transcriptional regulation in mouse and man T Ravasi, H Suzuki, CV Cannistraci, S Katayama, VB Bajic, K Tan, ... Cell 140 (5), 744-752, 2010	682	2010
Neutral evolution of mutational robustness E Van Nimwegen, JP Crutchfield, M Huynen Proceedings of the National Academy of Sciences 96 (17), 9716-9720, 1999	621	1999
Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes E Yang, E van Nimwegen, M Zavolan, N Rajewsky, M Schroeder, ... Genome research 13 (8), 1863-1872, 2003	549	2003
Inference of miRNA targets using evolutionary conservation and pathway analysis D Gaidatzis, E van Nimwegen, J Hausser, M Zavolan BMC bioinformatics 8 (1), 1-22, 2007	387	2007
Scaling laws in the functional content of genomes E van Nimwegen Power Laws, Scale-Free Networks and Genome Biology, 236-253, 2006	354	2006
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line H Suzuki, ARR Forrest, E Van Nimwegen, CO Daub, PJ Balwierz, ... Nature genetics 41 (5), 553, 2009	348	2009
PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny R Siddharthan, ED Siggia, E Van Nimwegen PLoS Comput Biol 1 (7), e67, 2005	344	2005
Sox4 is a master regulator of epithelial-mesenchymal transition by controlling Ezh2 expression and epigenetic reprogramming N Tiwari, VK Tiwari, L Waldmeier, PJ Balwierz, P Arnold, M Pachkov, ... Cancer cell 23 (6), 768-783, 2013	340	2013
Identification of clustered microRNAs using an ab initio prediction method A Sewer, N Paul, P Landgraf, A Aravin, S Pfeffer, MJ Brownstein, T Tuschl, ... BMC bioinformatics 6 (1), 1-15, 2005	289	2005
A probabilistic method to detect regulatory modules S Sinha, E Van Nimwegen, ED Siggia Bioinformatics 19 (suppl_1), i292-i301, 2003	273	2003
Automated reconstruction of whole-genome phylogenies from short-sequence reads F Bertels, OK Silander, M Pachkov, PB Rainey, E van Nimwegen Molecular biology and evolution 31 (5), 1077-1088, 2014	257	2014
The frequency distribution of gene family sizes in complete genomes. MA Huynen, E Van Nimwegen Molecular biology and evolution 15 (5), 583-589, 1998	250	1998
Adipose tissue microRNAs as regulators of CCL2 production in human obesity E Arner, N Mejhert, A Kulyté, PJ Balwierz, M Pachkov, M Cormont, ... Diabetes 61 (8), 1986-1993, 2012	233	2012
Tyrosine phosphatase SHP2 promotes breast cancer progression and maintains tumor-initiating cells via activation of key transcription factors and a positive feedback signaling loop N Aceto, N Sausgruber, H Brinkhaus, D Gaidatzis, G Martiny-Baron, ... Nature medicine 18 (4), 529, 2012	218	2012
Accurate prediction of protein–protein interactions from sequence alignments using a Bayesian method L Burger, E Van Nimwegen Molecular systems biology 4 (1), 165, 2008	203	2008
Statistical dynamics of the royal road genetic algorithm E Van Nimwegen, JP Crutchfield, M Mitchell Theoretical Computer Science 229 (1-2), 41-102, 1999	198	1999
Disentangling direct from indirect co-evolution of residues in protein alignments L Burger, E Van Nimwegen PLoS computational biology 6 (1), e1000633, 2010	196	2010

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