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Staff at EMBL

Charles Girardot

Head of Genome Biology Computational Support

EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany

E-mail: send a mail

Publications

Coordinated repression and activation of two transcriptional programs stabilizes cell fate during myogenesis. Ciglar, L., Girardot, C., Wilczynski, B., Braun, M. & Furlong, E.E. Development. 2014 Jul;141(13):2633-43. doi: 10.1242/dev.101956. Europe PMC

Subtle changes in motif positioning cause tissue-specific effects on robustness of an enhancer's activity. Erceg, J., Saunders, T.E., Girardot, C., Devos, D.P., Hufnagel, L. & Furlong, E.E. PLoS Genet. 2014 Jan;10(1):e1004060. doi: 10.1371/journal.pgen.1004060. Epub 2014Jan 2. Europe PMC

A conserved role for Snail as a potentiator of active transcription. Rembold, M., Ciglar, L., Yanez-Cuna, J.O., Zinzen, R.P., Girardot, C., Jain, A., Welte, M.A., Stark, A., Leptin, M. & Furlong, E.E. Genes Dev. 2014 Jan 15;28(2):167-81. doi: 10.1101/gad.230953.113. Epub 2014 Jan8. Europe PMC

Analysis of variation at transcription factor binding sites in Drosophila and humans. Spivakov, M., Akhtar, J., Kheradpour, P., Beal, K., Girardot, C., Koscielny, G., Herrero, J., Kellis, M., Furlong, E.E. & Birney, E. Genome Biol. 2012 Sep 28;13(9):R49. doi: 10.1186/gb-2012-13-9-r49. Europe PMC

Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development. Bonn, S., Zinzen, R.P., Girardot, C., Gustafson, E.H., Perez-Gonzalez, A., Delhomme, N., Ghavi-Helm, Y., Wilczynski, B., Riddell, A. & Furlong, E.E. Nat Genet. 2012 Jan 8;44(2):148-56. doi: 10.1038/ng.1064. Europe PMC

A transcription factor collective defines cardiac cell fate and reflects lineage history. Junion, G.*, Spivakov, M.*, Girardot, C., Braun, M., Gustafson, E.H., Birney, E. & Furlong, E.E. Cell. 2012 Feb 3;148(3):473-86. Europe PMC

Model-based method for transcription factor target identification with limited data. Honkela, A., Girardot, C., Gustafson, E.H., Liu, Y.H., Furlong, E.E., Lawrence, N.D. & Rattray, M. Proc Natl Acad Sci U S A. 2010 Apr 27;107(17):7793-8. Epub 2010 Apr 12. Europe PMC

Combinatorial binding predicts spatio-temporal cis-regulatory activity. Zinzen, R.P., Girardot, C., Gagneur, J., Braun, M. & Furlong, E.E. Nature. 2009 Nov 5;462(7269):65-70. Europe PMC

Dynamic regulation by polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila. Oktaba, K., Gutierrez, L., Gagneur, J., Girardot, C., Sengupta, A.K., Furlong, E.E. & Muller, J. Dev Cell. 2008 Dec;15(6):877-89. doi: 10.1016/j.devcel.2008.10.005. Epub 2008 Nov6. Europe PMC

4DXpress: a database for cross-species expression pattern comparisons. Haudry, Y., Berube, H., Letunic, I., Weeber, P.D., Gagneur, J., Girardot, C., Kapushesky, M., Arendt, D., Bork, P., Brazma, A., Furlong, E.E., Wittbrodt, J. & Henrich, T. Nucleic Acids Res. 2008 Jan;36(Database issue):D847-53. Epub 2007 Oct 4. Europe PMC

CoCo: a web application to display, store and curate ChIP-on-chip data integrated with diverse types of gene expression data. Girardot, C., Sklyar, O., Grosz, S., Huber, W. & Furlong, E.E. Bioinformatics. 2007 Mar 15;23(6):771-3. Epub 2007 Jan 17. Europe PMC

A core transcriptional network for early mesoderm development in Drosophila melanogaster. Sandmann, T., Girardot, C., Brehme, M., Tongprasit, W., Stolc, V. & Furlong, E.E. Genes Dev. 2007 Feb 15;21(4):436-49. Europe PMC

Elucidation of an archaeal replication protein network to generate enhanced PCR enzymes. Motz, M., Kober, I., Girardot, C., Loeser, E., Bauer, U., Albers, M., Moeckel, G., Minch, E., Voss, H., Kilger, C. & Koegl, M. J Biol Chem. 2002 May 3;277(18):16179-88. Epub 2002 Jan 22. Europe PMC