Publications

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Journals | Conferences | Books/Book Chapters | Publications (non-peer-reviewed) | Theses

Journals

Title: Genome-wide chromatin remodeling identified at GC-rich long nucleosome-free regions
Author(s): Karin Schwarzbauer, Ulrich Bodenhofer, Sepp Hochreiter
Published: PLoS ONE 7(11): e47924, 2012, doi:10.1371/journal.pone.0047924
Download: Abstract/Full Text
 
Title: cn.MOPS: mixture of Poissons for discovering copy number variations in next generation sequencing data with a low false discovery rate
Author(s): Günter Klambauer, Karin Schwarzbauer, Andreas Mayr, Djork-Arné Clevert, Andreas Mitterecker, Ulrich Bodenhofer, Sepp Hochreiter
Published: Nucl. Acids Res., 40(9):e69, 2012, doi:10.1093/nar/gks003
Download: Full Text
Software: cn.MOPS



Conferences

Title: Associating complex traits with rare variants identified by NGS: improving power by a position-dependent kernel approach
Author(s): Ulrich Bodenhofer, Sepp Hochreiter
Published: Talk at Annual Meeting of the American Society of Human Genetics (ASHG2012), San Francisco, USA, November 6-10, 2012
Abstract: PDF
 
Title: Haplotype clusters of rare variants in Korean genomes
Author(s): Sepp Hochreiter, Günter Klambauer, Gundula Povysil, Djork-Arné Clevert
Published: Poster at Annual Meeting of the American Society of Human Genetics (ASHG2012), San Francisco, USA, November 6-10, 2012
Abstract: PDF
 
Title: An integrative analysis pinpoints the pathogenesis of autism in the cerebellar vermis
Author(s): Djork-Arné Clevert, Sepp Hochreiter
Published: Poster at Annual Meeting of the American Society of Human Genetics (ASHG2012), San Francisco, USA, November 6-10, 2012
Abstract: PDF
 
Title: Detection of identity by descent based on rare variants
Author(s): Gundula Povysil, Günter Klambauer, Sepp Hochreiter
Published: Poster at Annual Meeting of the American Society of Human Genetics (ASHG2012), San Francisco, USA, November 6-10, 2012
Abstract: PDF
 
Title: CNV detection from exome sequencing data using a generative probabilistic model
Author(s): Günter Klambauer, Sepp Hochreiter
Published: Talk at 13th International Meeting on Human Genome Variation and Complex Genome Analysis (HGV2012), Shanghai, China, September 6-8, 2012
Abstract: PDF
 
Title: Identification of Short and Rare Haplotype Clusters in Korean Genomes
Author(s): Sepp Hochreiter, Günter Klambauer, Gundula Povysil, Djork-Arné Clevert
Published: Poster at 13th International Meeting on Human Genome Variation and Complex Genome Analysis (HGV2012), Shanghai, China, September 6-8, 2012
Abstract: PDF
 
Title: Improving the Power of Rare-Variant Association Tests by a Position-Dependent Kernel Approach
Author(s): Ulrich Bodenhofer, Sepp Hochreiter
Published: Poster at 13th International Meeting on Human Genome Variation and Complex Genome Analysis (HGV2012), Shanghai, China, September 6-8, 2012 (Best Poster Award (JPG))
Abstract: PDF
 
Title: Identifying IBD tracts that are tagged by rare variants
Author(s): Gundula Povysil, Sepp Hochreiter
Published: Poster at 13th International Meeting on Human Genome Variation and Complex Genome Analysis (HGV2012), Shanghai, China, September 6-8, 2012
Abstract: PDF
 
Title: CNV-analysis locates ASD’s pathogenesis in the cerebellar vermis
Author(s): Sepp Hochreiter, Djork-Arné Clevert
Published: Poster at 13th International Meeting on Human Genome Variation and Complex Genome Analysis (HGV2012), Shanghai, China, September 6-8, 2012
Abstract: PDF
 
Title: Rare Haplotypes in the Korean Population
Author(s): Sepp Hochreiter, Günter Klambauer, Gundula Povysil, Djork-Arné Clevert
Published: CAMDA 2012, Satellite Meeting of ISMB/ECCB 2012, Long Beach CA, USA, July 13-14, 2012
Abstract: PDF
 
Title: Exploiting the Japanese Toxicogenomics Project for Predictive Modelling of Drug Toxicity
Author(s): Djork-Arné Clevert, Martin Heusel, Andreas Mitterecker, Willem Talloen, Hinrich Göhlmann, Jörg Wegner, Andreas Mayr, Günter Klambauer, Sepp Hochreiter
Published: CAMDA 2012, Satellite Meeting of ISMB/ECCB 2012, Long Beach CA, USA, July 13-14, 2012
Abstract: PDF
 
Title: Increasing the Discovery Power of -Omics Studies
Author(s): Djork-Arné Clevert, Andreas Mayr, Günter Klambauer, Andreas Mitterecker, Armand Valsesia, Marianne Tuefferd, Karl Forner, Willem Talloen, Jérôme Wojcik, Hinrich Göhlmann, Sepp Hochreiter
Published: CAMDA 2011, Satellite Meeting of ISMB/ECCB 2011, Vienna, July 15-16, 2011 (to appear 2012)
PDF: PDF



Books/Book Chapters

Title: δ-Clustering of Monotone Profiles
Author(s): Adetayo Kasim, Suzy Van Sanden, Martin Otava, Sepp Hochreiter, Djork-Arné Clevert, Willem Talloen, Dan Lin
Editor(s): Dan Lin, Ziv Shkedy, Daniel Yekutieli, Dhammika Amaratunga, Luc Bijnens
Published: Use R!, Modeling Dose-Response Microarray Data in Early Drug Development Experiments Using R, 2012, Part 2, pp. 135-149,
doi: 10.1007/978-3-642-24007-2_9



Publications (non-peer-reviewed)

Title: FABIA: Biclustering in Drugdesign
Author(s): Martin Heusel, Djork-Arné Clevert, Gundula Povysil, Günter Klambauer, Ulrich Bodenhofer, Andreas Mayr, Andreas Mitterecker, Adetayo Kasim, Tatsiana Khamiakova, Suzy Van Sanden, Dan Lin, Willem Talloen, Hinrich W.H. Göhlmann, Luc Bijnens, Ziv Shkedy, Sepp Hochreiter
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: Detecting rare copy number variations (CNVs) with sparse coding on FF and FFPE
Author(s): Andreas Mitterecker, Djork-Arné Clevert, Andreas Mayr, Armand Valsesia, Karl Forner, Willem Talloen, Hinrich W.H. Göhlmann, Sepp Hochreiter
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: Detecting copy-number aberrations with a low false discovery rate
Author(s): Djork-Arné Clevert, Andreas Mitterecker, Andreas Mayr, Günter Klambauer, Marianne Tuefferd, An De Bondt, Willem Talloen, Hinrich W.H. Göhlmann, Luc Bijnens, Ziv Shkedy, Sepp Hochreiter
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: Comparing methods detecting differentially expressed genes in RNA-seq data
Author(s): Thomas Unterthiner, Günter Klambauer, Sepp Hochreiter
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: Genome-Wide Chromatin Remodeling Identified at GC-Rich Long Nucleosome-Free Regions
Author(s): Ulrich Bodenhofer, Karin Schwarzbauer, Sepp Hochreiter
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: cn.MOPS: mixture of Poissons for discovering copy number variations in next generation sequencing data with a low false discovery rate
Author(s): Günter Klambauer, Karin Schwarzbauer, Andreas Mayr, Djork-Arné Clevert, Andreas Mitterecker, Ulrich Bodenhofer, Sepp Hochreiter
Published: Talk at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: Comparison of IBD detection methods with a focus on rare variants
Author(s): Gundula Povysil, Günter Klambauer, Sepp Hochreiter
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: Spindle organization is regulated nonlinearly
Author(s): Andreas Mayr, Djork-Arné Clevert, Sepp Hochreiter
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 
Title: Copy number aberrations affecting adhesion genes involved in the development of the cerebellar vermis are associated with autism spectrum disorders
Author(s): Sepp Hochreiter, Djork-Arné Clevert
Published: Poster at 20th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA, USA, July 15 - July 17 2012
 



Theses

Title: Clustering of [Ca²⁺]ᵢ Traces for Studying Calcium Signaling on a Single-cell Level
Author(s): Christoph Ogris
Published: Master thesis, December 2012
 
Title: Evaluating RNA-seq Methods for Differential Gene Expression
Author(s): Thomas Unterthiner
Published: Master thesis, July 2012
 
Title: Detection of Copy Number Variations on Microarray Data
Author(s): Andreas Mitterecker
Published: Master thesis, May 2012
 
Title: An R package for the visualization of the results of projection methods with applications in bioinformatics
Author(s): Andrea Salfinger
Published: Master thesis, May 2012