Publications

2012

Arnold, P, Erb I, Pachkov M, Molina N, van Nimwegen E.  2012.  MotEvo: integrated Bayesian probabilistic methods for inferring regulatory sites and motifs on multiple alignments of DNA sequences. Bioinformatics. 28:487–494.
Erb, I, González-Vallinas JR., Bussotti G, Blanco E, Eyras E, Notredame C.  2012.  Use of ChIP-Seq data for the design of a multiple promoter-alignment method.. Nucleic Acids Res.. 40:e52. Abstract
Pubmed

2011

Erb, I, van Nimwegen E.  2011.  Transcription Factor Binding Site Positioning in Yeast: Proximal Promoter Motifs Characterize TATA-Less Promoters. PloS one. 6:e24279.
Taly, JF., Magis C, Bussotti G, Chang JM., Di Tommaso P, Erb I, Espinosa-Carrasco J, Kemena C, Notredame C.  2011.  Using the T-Coffee package to build multiple sequence alignments of protein, RNA, DNA sequences and 3D structures.. Nat Protoc. 6:1669–1682. Abstract
Pubmed
Bussotti, G, Raineri E, Erb I, Zytnicki M, Wilm A, Beaudoing E, Bucher P, Notredame C.  2011.  BlastR–fast and accurate database searches for non-coding RNAs.. Nucleic Acids Res.. 39:6886–6895. Abstract
Pubmed

2009

Taddei, A, Van Houwe G, Nagai S, Erb I, van Nimwegen E, Gasser SM.  2009.  The functional importance of telomere clustering: Global changes in gene expression result from SIR factor dispersion. Genome research. 19:611–625.

2008

Schlecht, U, Erb I, Demougin P, Robine N, Borde V, van Nimwegen E, Nicolas A, Primig M.  2008.  Genome-wide expression profiling, in vivo DNA binding analysis, and probabilistic motif prediction reveal novel Abf1 target genes during fermentation, respiration, and sporulation in yeast. Molecular Biology of the Cell. 19:2193–2207.