Simon van Heeringen
Simon van Heeringen
Assistant Professor Computational Developmental Biology, Radboud University Nijmegen
Verified email at science.ru.nl - Homepage
Title
Cited by
Cited by
Year
Genome evolution in the allotetraploid frog Xenopus laevis
AM Session, Y Uno, T Kwon, JA Chapman, A Toyoda, S Takahashi, ...
Nature 538 (7625), 336-343, 2016
5162016
ChIP-Seq of ERα and RNA polymerase II defines genes differentially responding to ligands
WJ Welboren, MA Van Driel, EM Janssen-Megens, SJ Van Heeringen, ...
The EMBO journal 28 (10), 1418-1428, 2009
4392009
Bioconda: sustainable and comprehensive software distribution for the life sciences.
B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ...
Nature methods 15 (7), 475, 2018
4112018
β-Glucan Reverses the Epigenetic State of LPS-Induced Immunological Tolerance
B Novakovic, E Habibi, SY Wang, RJW Arts, R Davar, W Megchelenbrink, ...
Cell 167 (5), 1354-1368. e14, 2016
2642016
Enrichment of gene-coding sequences in maize by genome filtration
CA Whitelaw, WB Barbazuk, G Pertea, AP Chan, F Cheung, Y Lee, ...
Science 302 (5653), 2118-2120, 2003
2512003
A hierarchy of H3K4me3 and H3K27me3 acquisition in spatial gene regulation in Xenopus embryos
RC Akkers, SJ van Heeringen, UG Jacobi, EM Janssen-Megens, ...
Developmental cell 17 (3), 425-434, 2009
2332009
Genome-Wide Profiling of Liver X Receptor, Retinoid X Receptor, and Peroxisome Proliferator-Activated Receptor α in Mouse Liver Reveals Extensive Sharing of Binding Sites
M Boergesen, TĹ Pedersen, B Gross, SJ van Heeringen, D Hagenbeek, ...
Molecular and Cellular Biology 32 (4), 852-867, 2012
2152012
Characterization of genome-wide p53-binding sites upon stress response
L Smeenk, SJ Van Heeringen, M Koeppel, MA Van Driel, SJJ Bartels, ...
Nucleic acids research 36 (11), 3639-3654, 2008
2112008
Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis
O Bogdanović, A Fernandez-Mińán, JJ Tena, E de la Calle-Mustienes, ...
Genome Research 22 (10), 2043-2053, 2012
1972012
Genome-wide profiling of p63 DNA–binding sites identifies an element that regulates gene expression during limb development in the 7q21 SHFM1 locus
EN Kouwenhoven, SJ Van Heeringen, JJ Tena, M Oti, BE Dutilh, ...
PLoS genetics 6 (8), e1001065, 2010
1572010
Role of p53 serine 46 in p53 target gene regulation
L Smeenk, SJ Van Heeringen, M Koeppel, B Gilbert, E Janssen-Megens, ...
PloS one 6 (3), e17574, 2011
1532011
GimmeMotifs: a de novo motif prediction pipeline for ChIP-sequencing experiments
SJ van Heeringen, GJC Veenstra
Bioinformatics 27 (2), 270-271, 2010
1242010
Amphioxus functional genomics and the origins of vertebrate gene regulation
F Marlétaz, PN Firbas, I Maeso, JJ Tena, O Bogdanovic, M Perry, ...
Nature, 1, 2018
1112018
Transcription factor p63 bookmarks and regulates dynamic enhancers during epidermal differentiation
EN Kouwenhoven, M Oti, H Niehues, SJ van Heeringen, J Schalkwijk, ...
EMBO reports 16 (7), 863-878, 2015
1002015
MTF2 recruits Polycomb Repressive Complex 2 by helical-shape-selective DNA binding
M Perino, G van Mierlo, ID Karemaker, S van Genesen, M Vermeulen, ...
Nature genetics 50 (7), 1002, 2018
932018
Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis
O Bogdanović, SW Long, SJ van Heeringen, AB Brinkman, ...
Genome Research 21 (8), 1313-1327, 2011
872011
Embryonic transcription is controlled by maternally defined chromatin state
S Hontelez, I Van Kruijsbergen, G Georgiou, SJ Van Heeringen, ...
Nature communications 6, 10148, 2015
722015
Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development
CG Toenhake, SAK Fraschka, MS Vijayabaskar, DR Westhead, ...
Cell host & microbe 23 (4), 557-569. e9, 2018
642018
Principles of nucleation of H3K27 methylation during embryonic development
SJ van Heeringen, RC Akkers, I van Kruijsbergen, MA Arif, LLP Hanssen, ...
Genome Research, gr. 159608.113, 2013
612013
Global absolute quantification reveals tight regulation of protein expression in single Xenopus eggs
AH Smits, RGH Lindeboom, M Perino, SJ van Heeringen, GJC Veenstra, ...
Nucleic acids research 42 (15), 9880-9891, 2014
552014
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