| Felix Naef |
 |
| |
|
Contact
Felix Naef
Swiss Institute for Cancer Research (ISREC)
School of Life Sciences
EPFL SV ISREC UPNAE
AAB 0 21 (Bâtiment AAB)
Station 15
1015 Lausanne
Switzerland
Phone : +41 21 693 1621
Email : felix.naef@epfl.ch
|
Felix Naef performed his thesis research in theoretical physics at the EPFL, Lausanne, Switzerland, with Dr. X. Zotos and Prof. A. Baldereschi, and obtained his PhD in 2000. He then joined the Center for Studies in Physics and Biology at the Rockefeller University, where he was a Bristol-Meyers Squibb postdoctoral fellow with Prof. M Magnasco. In January of 2004, he joined the ISREC as a junior group leader and was appointed group leader (computational and systems biology) of the Swiss Institute of Bioinformatics (SIB). In October 2005, he became an Assistant Professor in Computational and Systems Biology at the ISREC, School of Life Sciences, Ecole polytechnique fédérale de Lausanne (EPFL), Lausanne, Switzerland.
|
|
|
Current research
Our lab is interested in quantitative, computational, and systems biology. We work on various problems including circadian biology, developmental patterning, transcription regulatory networks, and single cell imaging. To study these systems we apply theoretical, computational and experimental methods. We have extensive past experience with analyzing functional genomics datasets related to the circadian clock. Recently, we have identified phase specific circadian regulatory elements using a phylogenetic approach, and we are currently validating our computational predictions using biochemical assays and ChIP-seq in mouse liver. We are also interested in the precision of circadian oscillators in presence of intrinsic fluctuations using simulations and theoretical approaches, and on the interactions between circadian and cell cycle oscillators (More info: http://naef-lab.epfl.ch/)
Keywords
Computational circadian biology, transcription regulatory networks, protein-DNA interactions, data modeling and data mining in functional genomics, biophysical modeling, dynamical systems, statistical physics
|
|
|
|
Role within the CycliX Consortium
|
|
|
|
My group will contribute expertise for computational analysis of the datasets generated within CycliX. We are particulalry interested in finding novel phase-spcific circadian enhancers. We will collaborate closely with the Schibler lab on mapping DNase 1 hypesensitive sites around the clock, and with the Deplancke lab to dissect out transcription regulatory networks by combining experimental and computational methods.
|
|
| |
| |
| Relevant publications: |
|
| |
Adam Claridge-Chang, Herman Wijnen, Felix Naef, Catharine Boothroth, Nikolaus Rajewksi, and Michael W. Young, Circadian Regulation of Gene Expression Systems in the Drosophila Head, Neuron 32, 657-671 (2001).
Nagoshi E, Saini C, Bauer C, Laroche T, Naef F, Schibler U., Circadian gene expression in individual fibroblasts: cell-autonomous and self-sustained oscillators pass time to daughter cells, Cell. 2004 Nov 24;119(5):693-705.
Ueli Schibler and Felix Naef, Cellular oscillators: rhythmic gene expression and metabolism. Curr Opin Cell Biol. 2005 Apr;17(2):223-9.
Rougemont, J., and Naef, F. Dynamical signatures of cellular fluctuations and oscillator stability in peripheral circadian clocks. Mol Syst Biol 3, 93 (2007).
Eric Paquet, Guilaume Rey and Felix Naef, Modeling an Evolutionary Conserved Circadian Cis-Element, PLoS Computational Biology Vol. 4, No. 2, e38, (2008).
Dibner Charna, Sage Daniel, Unser Michael, Bauer Christoph, d`Esmond Thomas, Naef Felix and Schibler Ueli, Circadian Gene Expression is Resilient to Large Fluctuations in Overall Transcription Rates, EMBO J. 2009 Jan 21;28(2):123-34.
Link: Full publication list
|
| |
| |