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Items: 1 to 50 of 67

1.

Identification and characterisation of hypomethylated DNA loci controlling quantitative resistance in Arabidopsis.

Furci L, Jain R, Stassen J, Berkowitz O, Whelan J, Roquis D, Baillet V, Colot V, Johannes F, Ton J.

Elife. 2019 Jan 4;8. pii: e40655. doi: 10.7554/eLife.40655.

2.

Epigenetic mapping of the Arabidopsis metabolome reveals mediators of the epigenotype-phenotype map.

Kooke R, Morgado L, Becker F, van Eekelen H, Hazarika R, Zheng Q, de Vos RCH, Johannes F, Keurentjes JJB.

Genome Res. 2019 Jan;29(1):96-106. doi: 10.1101/gr.232371.117. Epub 2018 Nov 30.

3.

Spontaneous epimutations in plants.

Johannes F, Schmitz RJ.

New Phytol. 2019 Feb;221(3):1253-1259. doi: 10.1111/nph.15434. Epub 2018 Sep 14. Review.

PMID:
30216456
4.

METHimpute: imputation-guided construction of complete methylomes from WGBS data.

Taudt A, Roquis D, Vidalis A, Wardenaar R, Johannes F, Colome-Tatché-Tatché M.

BMC Genomics. 2018 Jun 7;19(1):444. doi: 10.1186/s12864-018-4641-x.

5.

Parental DNA Methylation States Are Associated with Heterosis in Epigenetic Hybrids.

Lauss K, Wardenaar R, Oka R, van Hulten MHA, Guryev V, Keurentjes JJB, Stam M, Johannes F.

Plant Physiol. 2018 Feb;176(2):1627-1645. doi: 10.1104/pp.17.01054. Epub 2017 Dec 1.

6.

Computational tools for plant small RNA detection and categorization.

Morgado L, Johannes F.

Brief Bioinform. 2017 Oct 20. doi: 10.1093/bib/bbx136. [Epub ahead of print]

PMID:
29059285
7.

Small RNAs Reflect Grandparental Environments in Apomictic Dandelion.

Morgado L, Preite V, Oplaat C, Anava S, Ferreira de Carvalho J, Rechavi O, Johannes F, Verhoeven KJF.

Mol Biol Evol. 2017 Aug 1;34(8):2035-2040. doi: 10.1093/molbev/msx150.

8.

Erratum to: Methylome Evolution in plants.

Vidalis A, Živković D, Wardenaar R, Roquis D, Tellier A, Johannes F.

Genome Biol. 2017 Feb 27;18(1):41. doi: 10.1186/s13059-017-1176-4. No abstract available.

9.

Methylome evolution in plants.

Vidalis A, Živković D, Wardenaar R, Roquis D, Tellier A, Johannes F.

Genome Biol. 2016 Dec 20;17(1):264. doi: 10.1186/s13059-016-1127-5. Review. Erratum in: Genome Biol. 2017 Feb 27;18(1):41.

10.

Quantitative Trait Locus Analysis of Mating Behavior and Male Sex Pheromones in Nasonia Wasps.

Diao W, Mousset M, Horsburgh GJ, Vermeulen CJ, Johannes F, van de Zande L, Ritchie MG, Schmitt T, Beukeboom LW.

G3 (Bethesda). 2016 Jun 1;6(6):1549-62. doi: 10.1534/g3.116.029074.

11.

Genetic sources of population epigenomic variation.

Taudt A, Colomé-Tatché M, Johannes F.

Nat Rev Genet. 2016 Jun;17(6):319-32. doi: 10.1038/nrg.2016.45. Epub 2016 May 9. Review.

PMID:
27156976
12.

Signatures of Dobzhansky-Muller Incompatibilities in the Genomes of Recombinant Inbred Lines.

Colomé-Tatché M, Johannes F.

Genetics. 2016 Feb;202(2):825-41. doi: 10.1534/genetics.115.179473. Epub 2015 Dec 17.

13.

Rate, spectrum, and evolutionary dynamics of spontaneous epimutations.

van der Graaf A, Wardenaar R, Neumann DA, Taudt A, Shaw RG, Jansen RC, Schmitz RJ, Colomé-Tatché M, Johannes F.

Proc Natl Acad Sci U S A. 2015 May 26;112(21):6676-81. doi: 10.1073/pnas.1424254112. Epub 2015 May 11.

14.

histoneHMM: Differential analysis of histone modifications with broad genomic footprints.

Heinig M, Colomé-Tatché M, Taudt A, Rintisch C, Schafer S, Pravenec M, Hubner N, Vingron M, Johannes F.

BMC Bioinformatics. 2015 Feb 22;16:60. doi: 10.1186/s12859-015-0491-6.

15.

Epigenetic basis of morphological variation and phenotypic plasticity in Arabidopsis thaliana.

Kooke R, Johannes F, Wardenaar R, Becker F, Etcheverry M, Colot V, Vreugdenhil D, Keurentjes JJ.

Plant Cell. 2015 Feb;27(2):337-48. doi: 10.1105/tpc.114.133025. Epub 2015 Feb 10.

16.

Natural variation of histone modification and its impact on gene expression in the rat genome.

Rintisch C, Heinig M, Bauerfeind A, Schafer S, Mieth C, Patone G, Hummel O, Chen W, Cook S, Cuppen E, Colomé-Tatché M, Johannes F, Jansen RC, Neil H, Werner M, Pravenec M, Vingron M, Hubner N.

Genome Res. 2014 Jun;24(6):942-53. doi: 10.1101/gr.169029.113. Epub 2014 May 2.

17.

Mapping the epigenetic basis of complex traits.

Cortijo S, Wardenaar R, Colomé-Tatché M, Gilly A, Etcheverry M, Labadie K, Caillieux E, Hospital F, Aury JM, Wincker P, Roudier F, Jansen RC, Colot V, Johannes F.

Science. 2014 Mar 7;343(6175):1145-8. doi: 10.1126/science.1248127. Epub 2014 Feb 6.

PMID:
24505129
18.

Genome-wide analysis of DNA methylation in Arabidopsis using MeDIP-chip.

Cortijo S, Wardenaar R, Colomé-Tatché M, Johannes F, Colot V.

Methods Mol Biol. 2014;1112:125-49. doi: 10.1007/978-1-62703-773-0_9.

PMID:
24478012
19.

Evaluation of MeDIP-chip in the context of whole-genome bisulfite sequencing (WGBS-seq) in Arabidopsis.

Wardenaar R, Liu H, Colot V, Colomé-Tatché M, Johannes F.

Methods Mol Biol. 2013;1067:203-24. doi: 10.1007/978-1-62703-607-8_13.

PMID:
23975794
20.

Genome-wide methylation profiling identifies hypermethylated biomarkers in high-grade cervical intraepithelial neoplasia.

Lendvai Á, Johannes F, Grimm C, Eijsink JJ, Wardenaar R, Volders HH, Klip HG, Hollema H, Jansen RC, Schuuring E, Wisman GB, van der Zee AG.

Epigenetics. 2012 Nov;7(11):1268-78. doi: 10.4161/epi.22301. Epub 2012 Sep 27.

21.

MeDIP-HMM: genome-wide identification of distinct DNA methylation states from high-density tiling arrays.

Seifert M, Cortijo S, Colomé-Tatché M, Johannes F, Roudier F, Colot V.

Bioinformatics. 2012 Nov 15;28(22):2930-9. doi: 10.1093/bioinformatics/bts562. Epub 2012 Sep 17.

PMID:
22989518
22.

Features of the Arabidopsis recombination landscape resulting from the combined loss of sequence variation and DNA methylation.

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.

Proc Natl Acad Sci U S A. 2012 Oct 2;109(40):16240-5. doi: 10.1073/pnas.1212955109. Epub 2012 Sep 17.

23.

Genome-wide epigenetic perturbation jump-starts patterns of heritable variation found in nature.

Roux F, Colomé-Tatché M, Edelist C, Wardenaar R, Guerche P, Hospital F, Colot V, Jansen RC, Johannes F.

Genetics. 2011 Aug;188(4):1015-7. doi: 10.1534/genetics.111.128744. Epub 2011 May 19.

24.

Concerning epigenetics and inbreeding.

Johannes F, Colomé-Tatché M.

Nat Rev Genet. 2011 May;12(5):376. doi: 10.1038/nrg2664-c3. Epub 2011 Mar 22. No abstract available.

PMID:
21423241
25.

Quantitative epigenetics through epigenomic perturbation of isogenic lines.

Johannes F, Colomé-Tatché M.

Genetics. 2011 May;188(1):215-27. doi: 10.1534/genetics.111.127118. Epub 2011 Mar 8.

26.

Modifier genes for mouse phosphatidylinositol transfer protein α (vibrator) that bypass juvenile lethality.

Concepcion D, Johannes F, Lo YH, Yao J, Fong J, Hamilton BA.

Genetics. 2011 Apr;187(4):1185-91. doi: 10.1534/genetics.110.125906. Epub 2011 Feb 14.

27.

Undifferentiated embryonic cell transcription factor 1 regulates ESC chromatin organization and gene expression.

Kooistra SM, van den Boom V, Thummer RP, Johannes F, Wardenaar R, Tesson BM, Veenhoff LM, Fusetti F, O'Neill LP, Turner BM, de Haan G, Eggen BJ.

Stem Cells. 2010 Oct;28(10):1703-14. doi: 10.1002/stem.497.

28.

Comparing genome-wide chromatin profiles using ChIP-chip or ChIP-seq.

Johannes F, Wardenaar R, Colomé-Tatché M, Mousson F, de Graaf P, Mokry M, Guryev V, Timmers HT, Cuppen E, Jansen RC.

Bioinformatics. 2010 Apr 15;26(8):1000-6. doi: 10.1093/bioinformatics/btq087. Epub 2010 Mar 5.

PMID:
20208068
29.

Genomics Portals: integrative web-platform for mining genomics data.

Shinde K, Phatak M, Johannes FM, Chen J, Li Q, Vineet JK, Hu Z, Ghosh K, Meller J, Medvedovic M.

BMC Genomics. 2010 Jan 13;11:27. doi: 10.1186/1471-2164-11-27.

30.

Assessing the impact of transgenerational epigenetic variation on complex traits.

Johannes F, Porcher E, Teixeira FK, Saliba-Colombani V, Simon M, Agier N, Bulski A, Albuisson J, Heredia F, Audigier P, Bouchez D, Dillmann C, Guerche P, Hospital F, Colot V.

PLoS Genet. 2009 Jun;5(6):e1000530. doi: 10.1371/journal.pgen.1000530. Epub 2009 Jun 26.

31.

System-wide molecular evidence for phenotypic buffering in Arabidopsis.

Fu J, Keurentjes JJ, Bouwmeester H, America T, Verstappen FW, Ward JL, Beale MH, de Vos RC, Dijkstra M, Scheltema RA, Johannes F, Koornneef M, Vreugdenhil D, Breitling R, Jansen RC.

Nat Genet. 2009 Feb;41(2):166-7. doi: 10.1038/ng.308. Epub 2009 Jan 25.

PMID:
19169256
32.

Selective genotyping and phenotyping strategies in a complex trait context.

Sen S, Johannes F, Broman KW.

Genetics. 2009 Apr;181(4):1613-26. doi: 10.1534/genetics.108.094607. Epub 2009 Jan 19.

33.

Epigenome dynamics: a quantitative genetics perspective.

Johannes F, Colot V, Jansen RC.

Nat Rev Genet. 2008 Nov;9(11):883-90. doi: 10.1038/nrg2467. Review.

PMID:
18927581
34.

Mapping temporally varying quantitative trait loci in time-to-failure experiments.

Johannes F.

Genetics. 2007 Feb;175(2):855-65. Epub 2006 Dec 6.

35.

QTL influencing baseline hematocrit in the C57BL/6J and DBA/2J lineage: age-related effects.

Johannes F, Blizard DA, Lionikas A, Lang DH, Vandenbergh DJ, Stout JT, Strauss JA, McClearn GE, Vogler GP.

Mamm Genome. 2006 Jun;17(6):689-99. Epub 2006 Jun 12.

PMID:
16783647
36.

Association of CPI-17 with protein kinase C and casein kinase I.

Zemlickova E, Johannes FJ, Aitken A, Dubois T.

Biochem Biophys Res Commun. 2004 Mar 26;316(1):39-47.

PMID:
15003508
37.

Intraparenchymal replacement of the left pulmonary artery with implantation of segmental arteries in a 26-year-old patient.

Cebi N, Johannes F, Botsios S, Walterbusch G.

J Thorac Cardiovasc Surg. 2003 Dec;126(6):2074-7. No abstract available.

38.

PKCmu prevents CD95-mediated apoptosis and enhances proliferation in pancreatic tumour cells.

Trauzold A, Schmiedel S, Sipos B, Wermann H, Westphal S, Röder C, Klapper W, Arlt A, Lehnert L, Ungefroren H, Johannes FJ, Kalthoff H.

Oncogene. 2003 Dec 4;22(55):8939-47.

PMID:
14654790
39.

Centaurin-alpha(1) associates with and is phosphorylated by isoforms of protein kinase C.

Zemlickova E, Dubois T, Kerai P, Clokie S, Cronshaw AD, Wakefield RI, Johannes FJ, Aitken A.

Biochem Biophys Res Commun. 2003 Aug 1;307(3):459-65.

PMID:
12893243
40.

Tyrosine phosphorylation of protein kinase D in the pleckstrin homology domain leads to activation.

Storz P, Döppler H, Johannes FJ, Toker A.

J Biol Chem. 2003 May 16;278(20):17969-76. Epub 2003 Mar 11.

41.

Protein kinase C(mu) regulation of the JNK pathway is triggered via phosphoinositide-dependent kinase 1 and protein kinase C(epsilon).

Brändlin I, Eiseler T, Salowsky R, Johannes FJ.

J Biol Chem. 2002 Nov 22;277(47):45451-7. Epub 2002 Sep 9.

42.

In vitro reconstructed human epithelia reveal contributions of Candida albicans EFG1 and CPH1 to adhesion and invasion.

Dieterich C, Schandar M, Noll M, Johannes FJ, Brunner H, Graeve T, Rupp S.

Microbiology. 2002 Feb;148(Pt 2):497-506.

PMID:
11832513
43.

Structural requirements for localization and activation of protein kinase C mu (PKC mu) at the Golgi compartment.

Hausser A, Link G, Bamberg L, Burzlaff A, Lutz S, Pfizenmaier K, Johannes FJ.

J Cell Biol. 2002 Jan 7;156(1):65-74. Epub 2002 Jan 3.

44.

Protein kinase C (PKC)eta-mediated PKC mu activation modulates ERK and JNK signal pathways.

Brändlin I, Hübner S, Eiseler T, Martinez-Moya M, Horschinek A, Hausser A, Link G, Rupp S, Storz P, Pfizenmaier K, Johannes FJ.

J Biol Chem. 2002 Feb 22;277(8):6490-6. Epub 2001 Dec 6.

45.

Protein kinase C mu selectively activates the mitogen-activated protein kinase (MAPK) p42 pathway.

Hausser A, Storz P, Hübner S, Braendlin I, Martinez-Moya M, Link G, Johannes FJ.

FEBS Lett. 2001 Mar 9;492(1-2):39-44.

46.

Intracellular action of the cytokine MIF to modulate AP-1 activity and the cell cycle through Jab1.

Kleemann R, Hausser A, Geiger G, Mischke R, Burger-Kentischer A, Flieger O, Johannes FJ, Roger T, Calandra T, Kapurniotu A, Grell M, Finkelmeier D, Brunner H, Bernhagen J.

Nature. 2000 Nov 9;408(6809):211-6.

PMID:
11089976
47.

Detection of protein-protein interactions using a green fluorescent protein-based mammalian two-hybrid system.

Fotin-Mleczek M, Rottmann M, Rehg G, Rupp S, Johannes FJ.

Biotechniques. 2000 Jul;29(1):22-6. No abstract available.

48.

Protein kinase C [micro] is regulated by the multifunctional chaperon protein p32.

Storz P, Hausser A, Link G, Dedio J, Ghebrehiwet B, Pfizenmaier K, Johannes FJ.

J Biol Chem. 2000 Aug 11;275(32):24601-7.

49.

Proteolytic cleavage and activation of protein kinase C [micro] by caspase-3 in the apoptotic response of cells to 1-beta -D-arabinofuranosylcytosine and other genotoxic agents.

Endo K, Oki E, Biedermann V, Kojima H, Yoshida K, Johannes FJ, Kufe D, Datta R.

J Biol Chem. 2000 Jun 16;275(24):18476-81.

50.

Proteolytic cleavage of protein kinase Cmu upon induction of apoptosis in U937 cells.

Häussermann S, Kittstein W, Rincke G, Johannes FJ, Marks F, Gschwendt M.

FEBS Lett. 1999 Dec 3;462(3):442-6.

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