Institute of Computer Science at Martin Luther University Halle-Wittenberg and German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Germany
Ivo Grosse received his Ph.D. at Boston University in 1999. Ivo has been working on computational biology, information theory, and machine learning at Free University Berlin, Cold Spring Harbor Laboratory, the Leibniz Institute of Plant Genetics and Crop Plant Research Gatersleben, and Martin Luther University Halle-Wittenberg, where he is professor of bioinformatics at the Institute of Computer Science since 2007.
De-novo motif discovery in DNA sequences has been a challenge since the early days of computational biology, and its importance has been increasing with the development of new experimental techniques and the ensuing flood of large-scale genomics and epigenomics data. One recurring question debated controversially in wet labs and dry labs all over the world is to which extent intra-motif dependencies exist and to which extent they can improve de-novo motif discovery. Here, we address this question based on ENCODE ChIP-seq data, and we find that intra-motif dependencies exist in the majority of binding sites. Surprisingly, these intra-motif dependencies are not limited to first-order dependencies among directly adjacent nucleotides in many cases, and we find that higher-order dependencies up to order four can be utilized for an improved de-novo motif discovery.
Read more about Ivo Grosses research
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