Leveraging cross-species transcription factor binding site patterns: From diabetes risk loci to disease mechanisms

Melina Claussnitzer, Simon N. Dankel, Bernward Klocke, Harald Grallert, Viktoria Glunk, Tea Berulava, Heekyoung Lee, Nikolay Oskolkov, Joao Fadista, Kerstin Ehlers, Simone Wahl, Christoph Hoffmann, Kun Qian, Tina Rönn, Helene Riess, Martina Müller-Nurasyid, Nancy Bretschneider, Timm Schroeder, Thomas Skurk, Bernhard HorsthemkeDerek Spieler, Martin Klingenspor, Martin Seifert, Michael J. Kern, Niklas Mejhert, Ingrid Dahlman, Ola Hansson, Stefanie M. Hauck, Matthias Blüher, Peter Arner, Leif Groop, Thomas Illig, Karsten Suhre, Yi Hsiang Hsu, Gunnar Mellgren, Hans Hauner, Helmut Laumen

Research output: Contribution to journalArticle

71 Citations (Scopus)

Abstract

Genome-wide association studies have revealed numerous risk loci associated with diverse diseases. However, identification of disease-causing variants within association loci remains a major challenge. Divergence in gene expression due to cis-regulatory variants in noncoding regions is central to disease susceptibility. We show that integrative computational analysis of phylogenetic conservation with a complexity assessment of co-occurring transcription factor binding sites (TFBS) can identify cis-regulatory variants and elucidate their mechanistic role in disease. Analysis of established type 2 diabetes risk loci revealed a striking clustering of distinct homeobox TFBS. We identified the PRRX1 homeobox factor as a repressor of PPARG2 expression in adipose cells and demonstrate its adverse effect on lipid metabolism and systemic insulin sensitivity, dependent on the rs4684847 risk allele that triggers PRRX1 binding. Thus, cross-species conservation analysis at the level of co-occurring TFBS provides a valuable contribution to the translation of genetic association signals to disease-related molecular mechanisms.

Original languageEnglish
Pages (from-to)343-358
Number of pages16
JournalCell
Volume156
Issue number1-2
DOIs
Publication statusPublished - 2014
Externally publishedYes

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Medical problems
Transcription Factors
Binding Sites
Homeobox Genes
Conservation
Genome-Wide Association Study
Disease Susceptibility
Protein Biosynthesis
Lipid Metabolism
Type 2 Diabetes Mellitus
Cluster Analysis
Insulin Resistance
Gene expression
Alleles
Gene Expression
Genes
Insulin

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Claussnitzer, M., Dankel, S. N., Klocke, B., Grallert, H., Glunk, V., Berulava, T., ... Laumen, H. (2014). Leveraging cross-species transcription factor binding site patterns: From diabetes risk loci to disease mechanisms. Cell, 156(1-2), 343-358. https://doi.org/10.1016/j.cell.2013.10.058

Leveraging cross-species transcription factor binding site patterns : From diabetes risk loci to disease mechanisms. / Claussnitzer, Melina; Dankel, Simon N.; Klocke, Bernward; Grallert, Harald; Glunk, Viktoria; Berulava, Tea; Lee, Heekyoung; Oskolkov, Nikolay; Fadista, Joao; Ehlers, Kerstin; Wahl, Simone; Hoffmann, Christoph; Qian, Kun; Rönn, Tina; Riess, Helene; Müller-Nurasyid, Martina; Bretschneider, Nancy; Schroeder, Timm; Skurk, Thomas; Horsthemke, Bernhard; Spieler, Derek; Klingenspor, Martin; Seifert, Martin; Kern, Michael J.; Mejhert, Niklas; Dahlman, Ingrid; Hansson, Ola; Hauck, Stefanie M.; Blüher, Matthias; Arner, Peter; Groop, Leif; Illig, Thomas; Suhre, Karsten; Hsu, Yi Hsiang; Mellgren, Gunnar; Hauner, Hans; Laumen, Helmut.

In: Cell, Vol. 156, No. 1-2, 2014, p. 343-358.

Research output: Contribution to journalArticle

Claussnitzer, M, Dankel, SN, Klocke, B, Grallert, H, Glunk, V, Berulava, T, Lee, H, Oskolkov, N, Fadista, J, Ehlers, K, Wahl, S, Hoffmann, C, Qian, K, Rönn, T, Riess, H, Müller-Nurasyid, M, Bretschneider, N, Schroeder, T, Skurk, T, Horsthemke, B, Spieler, D, Klingenspor, M, Seifert, M, Kern, MJ, Mejhert, N, Dahlman, I, Hansson, O, Hauck, SM, Blüher, M, Arner, P, Groop, L, Illig, T, Suhre, K, Hsu, YH, Mellgren, G, Hauner, H & Laumen, H 2014, 'Leveraging cross-species transcription factor binding site patterns: From diabetes risk loci to disease mechanisms', Cell, vol. 156, no. 1-2, pp. 343-358. https://doi.org/10.1016/j.cell.2013.10.058
Claussnitzer, Melina ; Dankel, Simon N. ; Klocke, Bernward ; Grallert, Harald ; Glunk, Viktoria ; Berulava, Tea ; Lee, Heekyoung ; Oskolkov, Nikolay ; Fadista, Joao ; Ehlers, Kerstin ; Wahl, Simone ; Hoffmann, Christoph ; Qian, Kun ; Rönn, Tina ; Riess, Helene ; Müller-Nurasyid, Martina ; Bretschneider, Nancy ; Schroeder, Timm ; Skurk, Thomas ; Horsthemke, Bernhard ; Spieler, Derek ; Klingenspor, Martin ; Seifert, Martin ; Kern, Michael J. ; Mejhert, Niklas ; Dahlman, Ingrid ; Hansson, Ola ; Hauck, Stefanie M. ; Blüher, Matthias ; Arner, Peter ; Groop, Leif ; Illig, Thomas ; Suhre, Karsten ; Hsu, Yi Hsiang ; Mellgren, Gunnar ; Hauner, Hans ; Laumen, Helmut. / Leveraging cross-species transcription factor binding site patterns : From diabetes risk loci to disease mechanisms. In: Cell. 2014 ; Vol. 156, No. 1-2. pp. 343-358.
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AU - Arner, Peter

AU - Groop, Leif

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AU - Laumen, Helmut

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