msa: an R package for multiple sequence alignment _{Bioinformatics}

Author(s):	Ulrich Bodenhofer, Enrico Bonatesta, Christoph Kainrath, Sepp Hochreiter
Published:	Bioinformatics, 31(24):3997-3999, 2015  doi:10.1093/bioinformatics/btv494, opens an external URL in a new window
Download:	PDF, opens an external URL in a new window

Prediction of human population responses to toxic compounds by a collaborative competition _{Nature Biotechnology}

Author(s):	Federica Eduati, Lara M Mangravite, Tao Wang, Hao Tang, ... , Sepp Hochreiter, Günter Klambauer, Andreas Mayr, ... , Ivan Rusyn, Fred A Wright, Gustavo Stolovitzky, Yang Xie, Julio Saez-Rodriguez
Published:	Nature Biotechnology, 33(9):933-940, 2015 doi:10.1038/nbt.3299, opens an external URL in a new window

Rchemcpp: a web service for structural analoging in ChEMBL, Drugbank and the Connectivity Map _{Bioinformatics}

Author(s):	Günter Klambauer, Martin Wischenbart, Michael Mahr, Thomas Unterthiner, Andreas Mayr, Sepp Hochreiter
Published:	Bioinformatics, 31(20):3392-3394, 2015 doi:10.1093/bioinformatics/btv373, opens an external URL in a new window
Download:	PDF, opens an external URL in a new window

KeBABS: an R package for kernel-based analysis of biological sequences _{Bioinformatics}

Author(s):	Johannes Palme, Sepp Hochreiter, Ulrich Bodenhofer
Published:	Bioinformatics, 31(15):2574-2576, 2015 doi:10.1093/bioinformatics/btv176, opens an external URL in a new window
Download:	PDF, opens an external URL in a new window
Abstract:	Abstract, opens an external URL in a new window

 

 

Using transcriptomics to guide lead optimization in drug discovery projects _{Drug Discovery Today}

Author(s):	Bie Verbist, Günter Klambauer, Liesbet Vervoort, Willem Talloen, QSTAR Consortium, Ziv Shkedy, Olivier Thas, Andreas Bender, Hinrich W.H. Göhlmann, Sepp Hochreiter
Published:	Drug Discovery Today, 20(5):505-513, 2015 doi:10.1016/j.drudis.2014.12.014, opens an external URL in a new window

Connecting gene expression data from connectivity map and in silico target predictions for small molecule mechanism-of-action analysis _{Mol. BioSyst.}

Author(s):	Aakash Chavan Ravindranath, Nolen Perualila-Tan, Adetayo Kasim, Georgios Drakakis, Sonia Liggi, Suzanne C. Brewerton, Daniel Mason, Michael J. Bodkin, David A. Evans, Aditya Bhagwat, Willem Talloen, Hinrich W. H. Göhlmann, QSTAR Consortium, Ziv Shkedy, Andreas Bender
Published:	Mol. BioSyst., 11:86-96, 2015 doi:10.1039/C4MB00328D, opens an external URL in a new window
Download:	Abstract, opens an external URL in a new window

Graded dominance and related graded properties of fuzzy connectives _{Fuzzy Sets and Systems}

Author(s):	Libor Behounek, Ulrich Bodenhofer, Petr Cintula, Susanne Saminger-Platz, Peter Sarkoci
Published:	Fuzzy Sets and Systems, 262:78-101, 2015 doi:10.1016/j.fss.2014.04.025, opens an external URL in a new window

ELU-Networks - Fast and Accurate CNN Learning on ImageNet _ICCV

Author(s):	Martin Heusel, Djork-Arné Clevert, Günter Klambauer, Andreas Mayr, Karin Schwarzbauer, Thomas Unterthiner, Sepp Hochreiter
Published:	Poster at International Conference on Computer Vision (ICCV 2015), Santiago, Chile, December 13-16, 2015
Downdload:	PDF, opens an external URL in a new window

Rectified Factor Networks _NIPS

Author(s):	Djork-Arné Clevert, Andreas Mayr, Thomas Unterthiner, Sepp Hochreiter
Published:	Conference Neural Information Processing Systems Foundation (NIPS 2015), Montreal, Canada, December 7-12, 2015
Downdload:	PDF, opens an external URL in a new window, Supplement (PDF), opens an external URL in a new window

panelcn. MOPS reaches clinical standards as a CNV detection tool for targeted panel sequencing data _ASHG

Author(s):	Verena Haunschmid, Gundula Povysil, Julia Vogt, Katharina Wimmer, Günter Klambauer, Sepp Hochreiter
Published:	Poster at Annual Meeting of the American Society of Human Genetics (ASHG 2015), Baltimore, USA, October 6-10, 2015
Abstract:	PDF, opens an external URL in a new window

KeBABS: an R/Bioconductor package for kernel-based analysis of biological sequences _ASHG

Author(s):	Johannes Palme, Sepp Hochreiter, Ulrich Bodenhofer
Published:	Poster at Annual Meeting of the American Society of Human Genetics (ASHG 2015), Baltimore, USA, October 6-10, 2015
Abstract:	PDF, opens an external URL in a new window

PODKAT: a software package implementing the position-dependent kernel association test _ASHG

Author(s):	Ulrich Bodenhofer, Sepp Hochreiter
Published:	Poster at Annual Meeting of the American Society of Human Genetics (ASHG 2015), Baltimore, USA, October 6-10, 2015
Abstract:	PDF, opens an external URL in a new window

Early Interbreeding between Ancestors of Humans, Neandertals, and Denisovans within Africa _SMBE 

Author(s):	Gundula Povysil, Sepp Hochreiter
Published:	Poster at Annual Meeting of the Society for Molecular Biology and Evolution (SMBE 2015), Vienna, Austria, July 12-16, 2015
Abstract:	PDF, opens an external URL in a new window

Toxicity Prediction using Deep Learning _arXiv.org

Author(s):	Thomas Unterthiner, Andreas Mayr, Günter Klambauer, Sepp Hochreiter
Published:	arXiv.org, Mar 2015
Download:	arXiv:1503.01445 [stat.ML], opens an external URL in a new window

Rectified Factor Networks _arXiv.org

Author(s):	Djork-Arné Clevert, Thomas Unterthiner, Andreas Mayr, Hubert Ramsauer, Sepp Hochreiter
Published:	arXiv.org, Feb 2015
Download:	arXiv:1502.06464 [cs.LG], opens an external URL in a new window

Support Vector Regression vs. Neural Network Regression in the Field of Predicting Drug-Target Binding Activities _{Master Thesis}

Published:	Master Thesis, 2015
Author(s):	Alexander Pfaffinger

Similarity-based clustering of big data: A parallel ensemble variant of leveraged affinity propagation _{Master Thesis}

Published:	Master Thesis, 2015
Author(s):	Chrats Melkonian

Development, application and analysis of a pipeline for genotype-to-phenotype whole-genome based predictions _{Master Thesis}

Published:	Master Thesis, 2015
Author(s):	Roman Josef Rainer

A copy number analysis and genome-wide association study of schizophrenia data _{Master Thesis}

Published:	Master Thesis, 2015
Author(s):	Nadine Stein

KeBABS - An R Package for Kernel-Based Analysis of Biological Sequences _{Master Thesis}

Published:	Master Thesis, 2015
Author(s):	Johannes Palme

Inferring Regulatory Interactions from Microarray Data Using the FABIA Biclustering Method: A Case Study for E.coli K-12 _{Master Thesis}

Published:	Master Thesis, 2015
Author(s):	Wilhelm Lichtberger

Detecting CNVs in the 1000 Genomes Project Data Using cn.MOPS and Relating the Results to Transcriptome Sequencing Data _{Master Thesis}

Published:	Master Thesis, 2015
Author(s):	Anna Maria Langmüller