Key reviews and perspectives

Vidali A, Živković D, Wardenaar R, Roquis D, Tellier A, Johannes F (2016). Methylome evolution in plants.
Genome Biology 17:264. Abstract

Taudt A, Colomé-Tatché M, Johannes F (2016). Genetic sources of population epigenomic variation.
Nature Reviews Genetics doi:10.1038/nrg.2016.45. Abstract

Johannes F, Colot V, Jansen RC (2008). Epigenome dynamics: A quantitative genetic perspective.
Nature Reviews Genetics 9: 883-890. Abstract

Key findings

Lauss K, Wardenaar R, Oka R, van Hulten MHA, Guryev V, Keurentjes JJB, Stam M, Johannes F (2017) Parental DNA Methylation States Are Associated with Heterosis in Epigenetic Hybrids.
Plant Physiology doi: 10.1104/pp.17.01054 Abstract

van der Graaf A, Wardenaar R, Neumann DA, Taudt A, Shaw RG, Jansen RC, Schmitz RJ, Colomé-Tatché M, Johannes F (2015). Rate, spectrum and evolutionary dynamics of spontaneous epimutations.
Proc. Natl. Acad. Sci. USA doi: 10.1073/pnas.1424254112. Abstract

Cortijo S, Wardenaar R, Colomé-Tatché M, Gilly A, Etcheverry M, Labadie K, Caillieux E, Hospital F, Aury J-M, Wincker P, Roudier F, Jansen RC, Colot V, Johannes F (2014). Mapping the epigenetic basis of complex traits.
Science doi:10.1126/science.1248127. Abstract

Colomé-Tatché M, Cortijo S, Wardenaar R, Morgado L, Lahouze B, Sarazin A, Etcheverry M, Martin A, Feng S, Duvernois-Berthet E, Labadie K, Wincker P, Jacobsen SE, Jansen RC, Colot V, Johannes F (2012). Features of the Arabidopsis recombination landscape resulting from the combined loss of sequence variation and DNA methylation.
Proc. Natl. Acad. Sci. USA doi:10.1073/pnas.1212955109. Abstract

Johannes F, Porcher E, Teixeira F, Saliba-Colombani V, Simon M, Agier N, Bulski A, Albuisson J, Heredia F, Bouchez D, Dillmann C, Guerche P, Hospital F, Colot V (2009). Assessing the impact of transgenerational epigenetic variation on complex traits.
PLoS Genetics 5: e1000530. Abstract

Key computational methods

Taudt A, Roquis D, Vidalis A, Wardenaar R, Johannes F, Colomé-Tatché M. METHimpute: Imputation-guided construction of complete methylomes from WGBS data.
BMC Genomics 19:444 Abstract

Taudt A, Nguyen MA, Heinig M, Johannes F, Colomé-Tatché M (preprint). chromstaR: Tracking combinatorial chromatin state dynamics in space and time.
bioRxiv doi: 10.1101/038612 Abstract

Heinig M, Colomé-Tatché M, Taudt A, Rintisch C, Schafer S, Pravenec M, Hubner N, Vingron M, Johannes F (2015). histoneHMM: Differential analysis of histone modifications with broad genomic footprints.
BMC Bioinformatics 16:60. Abstract

Seifert M, Cortijo S, Colomé-Tatché M, Johannes F, Roudier R, Colot V (2012). MeDIP-HMM: Genome-wide identification of distinct DNA methylation states from high-density tiling arrays.
Bioinformatics doi:10.1093/bioinformatics/bts562. Abstract