Identification of aberrant chromosomal regions from gene expression microarray studies applied to human breast cancer. - Andreas Buness; Ruprecht Kuner; Markus Ruschhaupt; Annemarie Poustka; Holger Sültmann; Achim Tresch (Bioinform., 2007)

Discrimination of Direct and Indirect Interactions in a Network of Regulatory Effects. - Achim Tresch; Tim Beißbarth; Holger Sültmann; Ruprecht Kuner; Annemarie Poustka; Andreas Buness (J. Comput. Biol., 2007)

Analyzing gene perturbation screens with nested effects models in R and bioconductor. - Holger Fröhlich; Tim Beißbarth; Achim Tresch; Dennis Kostka; Juby Jacob; Rainer Spang; Florian Markowetz (Bioinform., 2008)

Classification across gene expression microarray studies. - Andreas Buness; Markus Ruschhaupt; Ruprecht Kuner; Achim Tresch (BMC Bioinform., 2009)

A Bayesian Network View on Nested Effects Models. - Cordula Zeller; Holger Fröhlich; Achim Tresch (EURASIP J. Bioinform. Syst. Biol., 2009)

QuantProReloaded: quantitative analysis of microspot immunoassays. - Anika Jöcker; Johanna Sonntag; Frauke Henjes; Frank Götschel; Achim Tresch; Tim Beißbarth; Stefan Wiemann; Ulrike Korf (Bioinform., 2010)

Starr: Simple Tiling ARRay analysis of Affymetrix ChIP-chip data. - Benedikt Zacher; Pei Fen Kuan; Achim Tresch (BMC Bioinform., 2010)

Fast and efficient dynamic nested effects models. - Holger Fröhlich; Paurush Praveen; Achim Tresch (Bioinform., 2011)

Selective Phenotyping, Entropy Reduction and the Mastermind Game. - Julien Gagneur; Markus C. Elze; Achim Tresch (BMC Bioinform., 2011)

Automatic post-picking improves particle image detection from Cryo-EM micrographs - Ramin Norousi; Stephan Wickles; Thomas Becker 003; Roland Beckmann; Volker J. Schmid; Achim Tresch (CoRR, 2011)

Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA). - Björn Schwalb; Daniel Schulz; Mai Sun; Benedikt Zacher; Sebastian Dümcke; Dietmar E. Martin; Patrick Cramer; Achim Tresch (Bioinform., 2012)

Joint Bayesian inference of condition-specific miRNA and transcription factor activities from combined gene and microRNA expression data. - Benedikt Zacher; Khalid Abnaof; Stephan Gade; Erfan Younesi; Achim Tresch; Holger Fröhlich (Bioinform., 2012)

Automatic post-picking using MAPPOS improves particle image detection from Cryo-EM micrographs - Ramin Norousi; Stephan Wickles; Christoph Leidig; Thomas Becker 003; Volker J. Schmid; Roland Beckmann; Achim Tresch (CoRR, 2012)

MC EMiNEM Maps the Interaction Landscape of the Mediator. - Theresa Niederberger; Stefanie Etzold; Michael Lidschreiber; Kerstin C. Maier; Dietmar E. Martin; Holger Fröhlich; Patrick Cramer; Achim Tresch (PLoS Comput. Biol., 2012)

Learning gene network structure from time laps cell imaging in RNAi Knock downs. - Henrik Failmezger; Paurush Praveen; Achim Tresch; Holger Fröhlich (Bioinform., 2013)

Unsupervised automated high throughput phenotyping of RNAi time-lapse movies. - Henrik Failmezger; Holger Fröhlich; Achim Tresch (BMC Bioinform., 2013)

Semi-automated 3D Leaf Reconstruction and Analysis of Trichome Patterning from Light Microscopic Images. - Henrik Failmezger; Benjamin Jaegle; Andrea Schrader; Martin Hülskamp; Achim Tresch (PLoS Comput. Biol., 2013)

Genome-wide quantitative analysis of DNA methylation from bisulfite sequencing data. - Kemal Akman; Thomas Haaf; Silvia Gravina; Jan Vijg; Achim Tresch (Bioinform., 2014)

Exact likelihood computation in Boolean networks with probabilistic time delays, and its application in signal network reconstruction. - Sebastian Dümcke; Johannes Bräuer; Benedict Anchang; Rainer Spang; Niko Beerenwinkel; Achim Tresch (Bioinform., 2014)

Factor graph analysis of live cell-imaging data reveals mechanisms of cell fate decisions. - Theresa Niederberger; Henrik Failmezger; Diana Uskat; Don Poron; Ingmar Glauche; Nico Scherf; Ingo Roeder; Timm Schroeder; Achim Tresch (Bioinform., 2015)

GenoGAM: genome-wide generalized additive models for ChIP-Seq analysis. - Georg Stricker; Alexander Engelhardt; Daniel Schulz; Matthias Schmid; Achim Tresch; Julien Gagneur (Bioinform., 2017)

Clustering of samples with a tree-shaped dependence structure, with an application to microscopic time lapse imaging. - Henrik Failmezger; Ezgi Dursun; Sebastian Dümcke; Max Endele; Don Poron; Timm Schroeder; Anne Krug; Achim Tresch (Bioinform., 2019)

Nuclear export is a limiting factor in eukaryotic mRNA metabolism. - Jason M. Müller; Katharina Moos; Till Baar; Kerstin C. Maier; Kristina Zumer; Achim Tresch (PLoS Comput. Biol., 2024)