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Cell Specific eQTL Analysis without Sorting Cells. 2015
Harm-Jan Westra, and
Danny Arends, and
Tõnu Esko, and
Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
Anand Kumar Andiappan, and
Yang Li, and
Jingyuan Fu, and
Juha Karjalainen, and
Mathieu Platteel, and
Marijn Visschedijk, and
Rinse K Weersma, and
Silva Kasela, and
Lili Milani, and
Liina Tserel, and
Pärt Peterson, and
Eva Reinmaa, and
Albert Hofman, and
André G Uitterlinden, and
Fernando Rivadeneira, and
Georg Homuth, and
Astrid Petersmann, and
Roberto Lorbeer, and
Holger Prokisch, and
Thomas Meitinger, and
Christian Herder, and
Michael Roden, and
Harald Grallert, and
Samuli Ripatti, and
Markus Perola, and
Andrew R Wood, and
David Melzer, and
Luigi Ferrucci, and
Andrew B Singleton, and
Dena G Hernandez, and
Julian C Knight, and
Rossella Melchiotti, and
Bernett Lee, and
Michael Poidinger, and
Francesca Zolezzi, and
Anis Larbi, and
De Yun Wang, and
Leonard H van den Berg, and
Jan H Veldink, and
Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
Joyce B J van Meurs, and
Andres Metspalu, and
Cisca Wijmenga, and
Ritsert C Jansen, and
Lude Franke
University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, The Netherlands.
The functional consequences of trait associated SNPs are often investigated using expression quantitative trait locus (eQTL) mapping. While trait-associated variants may operate in a cell-type specific manner, eQTL datasets for such cell-types may not always be available. We performed a genome-environment interaction (GxE) meta-analysis on data from 5,683 samples to infer the cell type specificity of whole blood cis-eQTLs. We demonstrate that this method is able to predict neutrophil and lymphocyte specific cis-eQTLs and replicate these predictions in independent cell-type specific datasets. Finally, we show that SNPs associated with Crohn's disease preferentially affect gene expression within neutrophils, including the archetypal NOD2 locus.
Related Publications
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Danny Arends, and
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Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
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Konstantin Strauch, and
Uwe Völker, and
Joyce B J van Meurs, and
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Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
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Albert Hofman, and
André G Uitterlinden, and
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Michael Roden, and
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David Melzer, and
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Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
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Christian Herder, and
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Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
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Ritsert C Jansen, and
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Danny Arends, and
Tõnu Esko, and
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Hanieh Yaghootkar, and
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Astrid Petersmann, and
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Holger Prokisch, and
Thomas Meitinger, and
Christian Herder, and
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De Yun Wang, and
Leonard H van den Berg, and
Jan H Veldink, and
Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
Joyce B J van Meurs, and
Andres Metspalu, and
Cisca Wijmenga, and
Ritsert C Jansen, and
Lude Franke
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Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
Anand Kumar Andiappan, and
Yang Li, and
Jingyuan Fu, and
Juha Karjalainen, and
Mathieu Platteel, and
Marijn Visschedijk, and
Rinse K Weersma, and
Silva Kasela, and
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Albert Hofman, and
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Fernando Rivadeneira, and
Georg Homuth, and
Astrid Petersmann, and
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Holger Prokisch, and
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David Melzer, and
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Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
Anand Kumar Andiappan, and
Yang Li, and
Jingyuan Fu, and
Juha Karjalainen, and
Mathieu Platteel, and
Marijn Visschedijk, and
Rinse K Weersma, and
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Liina Tserel, and
Pärt Peterson, and
Eva Reinmaa, and
Albert Hofman, and
André G Uitterlinden, and
Fernando Rivadeneira, and
Georg Homuth, and
Astrid Petersmann, and
Roberto Lorbeer, and
Holger Prokisch, and
Thomas Meitinger, and
Christian Herder, and
Michael Roden, and
Harald Grallert, and
Samuli Ripatti, and
Markus Perola, and
Andrew R Wood, and
David Melzer, and
Luigi Ferrucci, and
Andrew B Singleton, and
Dena G Hernandez, and
Julian C Knight, and
Rossella Melchiotti, and
Bernett Lee, and
Michael Poidinger, and
Francesca Zolezzi, and
Anis Larbi, and
De Yun Wang, and
Leonard H van den Berg, and
Jan H Veldink, and
Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
Joyce B J van Meurs, and
Andres Metspalu, and
Cisca Wijmenga, and
Ritsert C Jansen, and
Lude Franke
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Journal of visualized experiments : JoVE,
Harm-Jan Westra, and
Danny Arends, and
Tõnu Esko, and
Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
Anand Kumar Andiappan, and
Yang Li, and
Jingyuan Fu, and
Juha Karjalainen, and
Mathieu Platteel, and
Marijn Visschedijk, and
Rinse K Weersma, and
Silva Kasela, and
Lili Milani, and
Liina Tserel, and
Pärt Peterson, and
Eva Reinmaa, and
Albert Hofman, and
André G Uitterlinden, and
Fernando Rivadeneira, and
Georg Homuth, and
Astrid Petersmann, and
Roberto Lorbeer, and
Holger Prokisch, and
Thomas Meitinger, and
Christian Herder, and
Michael Roden, and
Harald Grallert, and
Samuli Ripatti, and
Markus Perola, and
Andrew R Wood, and
David Melzer, and
Luigi Ferrucci, and
Andrew B Singleton, and
Dena G Hernandez, and
Julian C Knight, and
Rossella Melchiotti, and
Bernett Lee, and
Michael Poidinger, and
Francesca Zolezzi, and
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Leonard H van den Berg, and
Jan H Veldink, and
Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
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Andres Metspalu, and
Cisca Wijmenga, and
Ritsert C Jansen, and
Lude Franke
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Genome biology,
Harm-Jan Westra, and
Danny Arends, and
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Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
Anand Kumar Andiappan, and
Yang Li, and
Jingyuan Fu, and
Juha Karjalainen, and
Mathieu Platteel, and
Marijn Visschedijk, and
Rinse K Weersma, and
Silva Kasela, and
Lili Milani, and
Liina Tserel, and
Pärt Peterson, and
Eva Reinmaa, and
Albert Hofman, and
André G Uitterlinden, and
Fernando Rivadeneira, and
Georg Homuth, and
Astrid Petersmann, and
Roberto Lorbeer, and
Holger Prokisch, and
Thomas Meitinger, and
Christian Herder, and
Michael Roden, and
Harald Grallert, and
Samuli Ripatti, and
Markus Perola, and
Andrew R Wood, and
David Melzer, and
Luigi Ferrucci, and
Andrew B Singleton, and
Dena G Hernandez, and
Julian C Knight, and
Rossella Melchiotti, and
Bernett Lee, and
Michael Poidinger, and
Francesca Zolezzi, and
Anis Larbi, and
De Yun Wang, and
Leonard H van den Berg, and
Jan H Veldink, and
Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
Joyce B J van Meurs, and
Andres Metspalu, and
Cisca Wijmenga, and
Ritsert C Jansen, and
Lude Franke
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British journal of cancer,
Harm-Jan Westra, and
Danny Arends, and
Tõnu Esko, and
Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
Anand Kumar Andiappan, and
Yang Li, and
Jingyuan Fu, and
Juha Karjalainen, and
Mathieu Platteel, and
Marijn Visschedijk, and
Rinse K Weersma, and
Silva Kasela, and
Lili Milani, and
Liina Tserel, and
Pärt Peterson, and
Eva Reinmaa, and
Albert Hofman, and
André G Uitterlinden, and
Fernando Rivadeneira, and
Georg Homuth, and
Astrid Petersmann, and
Roberto Lorbeer, and
Holger Prokisch, and
Thomas Meitinger, and
Christian Herder, and
Michael Roden, and
Harald Grallert, and
Samuli Ripatti, and
Markus Perola, and
Andrew R Wood, and
David Melzer, and
Luigi Ferrucci, and
Andrew B Singleton, and
Dena G Hernandez, and
Julian C Knight, and
Rossella Melchiotti, and
Bernett Lee, and
Michael Poidinger, and
Francesca Zolezzi, and
Anis Larbi, and
De Yun Wang, and
Leonard H van den Berg, and
Jan H Veldink, and
Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
Joyce B J van Meurs, and
Andres Metspalu, and
Cisca Wijmenga, and
Ritsert C Jansen, and
Lude Franke
January 2020,
Methods in molecular biology (Clifton, N.J.),
Harm-Jan Westra, and
Danny Arends, and
Tõnu Esko, and
Marjolein J Peters, and
Claudia Schurmann, and
Katharina Schramm, and
Johannes Kettunen, and
Hanieh Yaghootkar, and
Benjamin P Fairfax, and
Anand Kumar Andiappan, and
Yang Li, and
Jingyuan Fu, and
Juha Karjalainen, and
Mathieu Platteel, and
Marijn Visschedijk, and
Rinse K Weersma, and
Silva Kasela, and
Lili Milani, and
Liina Tserel, and
Pärt Peterson, and
Eva Reinmaa, and
Albert Hofman, and
André G Uitterlinden, and
Fernando Rivadeneira, and
Georg Homuth, and
Astrid Petersmann, and
Roberto Lorbeer, and
Holger Prokisch, and
Thomas Meitinger, and
Christian Herder, and
Michael Roden, and
Harald Grallert, and
Samuli Ripatti, and
Markus Perola, and
Andrew R Wood, and
David Melzer, and
Luigi Ferrucci, and
Andrew B Singleton, and
Dena G Hernandez, and
Julian C Knight, and
Rossella Melchiotti, and
Bernett Lee, and
Michael Poidinger, and
Francesca Zolezzi, and
Anis Larbi, and
De Yun Wang, and
Leonard H van den Berg, and
Jan H Veldink, and
Olaf Rotzschke, and
Seiko Makino, and
Veikko Salomaa, and
Konstantin Strauch, and
Uwe Völker, and
Joyce B J van Meurs, and
Andres Metspalu, and
Cisca Wijmenga, and
Ritsert C Jansen, and
Lude Franke
June 2014,
BMC genomics,
