Publications
Transcriptional network analysis in muscle reveals AP-1 as a partner of PGC-1α in the regulation of the hypoxic gene program.
Posted in Publications, publishedNo Comment
M Baresic, S Salatino, B Kupr, E van Nimwegen, C Handschin
Transcriptional network analysis in muscle reveals AP-1 as a partner of PGC-1α in the regulation of the hypoxic gene program
Molecular and cellular biology, 2014, MCB. 01710-13
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Embryonic stem cell-specific microRNAs contribute to pluripotency by inhibiting regulators of multiple differentiation pathways
Posted in Publications, publishedNo Comment
AJ Gruber, WA Grandy, PJ Balwierz, YA Dimitrova, M Pachkov, C Ciaudo, E van Nimwegen, M Zavolan
Embryonic stem cell-specific microRNAs contribute to pluripotency by inhibiting regulators of multiple differentiation pathways,Nucleic Acids Res 2014:42(14) 9313-9326,
doi: 10.1093/nar/gku544
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Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support
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H Stockinger, AM Altenhoff, K Arnold, A Bairoch, F Bastian, S Bergmann, et al.
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support
Nucleic Acids Research 2014, gku380
ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs.
Posted in Publications, publishedNo Comment
PJ Balwierz, M Pachkov, P Arnold, AJ Gruber, M Zavolan and E. van Nimwegen
ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs
Genome research, 2014, 24 (5), 869-884
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Pegylated IFN-α regulates hepatic gene expression through transient Jak/STAT activation.
Posted in Publications, publishedNo Comment
MT Dill, Z Makowska, G Trincucci, AJ Gruber, JE Vogt, M Filipowicz, D Calabrese, I Krol, DT Lau, L Terracciano, E van Nimwegen, V Roth, MH Heim
Pegylated IFN-α regulates hepatic gene expression through transient Jak/STAT activation
The Journal of clinical investigation, 2014, 124 (4), 0-0
FANTOM Consortium and the RIKEN PMI and CLST (DGT) A promoter-level mammalian expression atlas. Nature, 2014, 507(7493), 462-70.
Read moreAutomated Reconstruction of Whole-Genome Phylogenies from Short-Sequence Reads
Posted in Publications, publishedNo Comment
F Bertels, OK Silander, M Pachkov, PB Rainey, E van Nimwegen
Automated Reconstruction of Whole-Genome Phylogenies from Short-Sequence Reads
Molecular biology and evolution 2014 31 (5), 1077-1088
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Tead2 expression levels control the subcellular distribution of Yap and Taz, zyxin expression and epithelial–mesenchymal transition.
Posted in Publications, publishedNo Comment
M Diepenbruck, L Waldmeier, R Ivanek, P Berninger, P Arnold, E. van Nimwegen and G. Christofori
Tead2 expression levels control the subcellular distribution of Yap and Taz, zyxin expression and epithelial–mesenchymal transition
Journal of cell science, 2014, 127 (7), 1523-1536
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Computational modeling identifies key gene regulatory interactions underlying phenobarbital-mediated tumor promotion.
Posted in Publications, publishedNo Comment
R Luisier, EB Unterberger, JI Goodman, M Schwarz, J Moggs, R Terranova, E van Nimwegen
Computational modeling identifies key gene regulatory interactions underlying phenobarbital-mediated tumor promotion
Nucleic acids research, 2014, gkt1415
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Timescales and bottlenecks in miRNA‐dependent gene regulation.
Posted in Publications, publishedNo Comment
J Hausser, AP Syed, N Selevsek, E van Nimwegen, L Jaskiewicz, R Aebersold, M Zavolan
Timescales and bottlenecks in miRNA‐dependent gene regulation
Molecular systems biology, 2013, 9 (1)
