NEMix: Single-cell Nested Effects Models for Probabilistic Pathway Stimulation

Simultaneous analysis of large-scale RNAi screens for pathogen entry

(2015) Pauli Rämö et al.   BMC GENOMICS

Major and Minor Group Rhinoviruses Elicit Differential Signaling and Cytokine Responses as a Function of Receptor-Mediated Signal Transduction

(2014) Bryce A. Schuler et al.   PLoS One

Learning gene network structure from time laps cell imaging in RNAi Knock downs

(2013) Henrik Failmezger et al.   BIOINFORMATICS

Single-cell analysis of population context advances RNAi screening at multiple levels

(2012) Berend Snijder et al.   Molecular Systems Biology

MC EMiNEM Maps the Interaction Landscape of the Mediator

(2012) Theresa Niederberger et al.   PLoS Computational Biology

Niclosamide Is a Proton Carrier and Targets Acidic Endosomes with Broad Antiviral Effects

(2012) Andreas Jurgeit et al.   PLoS Pathogens

HTSanalyzeR: an R/Bioconductor package for integrated network analysis of high-throughput screens

(2011) X. Wang et al.   BIOINFORMATICS

Normalizing for individual cell population context in the analysis of high-content cellular screens

(2011) Bettina Knapp et al.   BMC BIOINFORMATICS

RNAi screening: new approaches, understandings, and organisms

(2011) Stephanie E. Mohr et al.   Wiley Interdisciplinary Reviews-RNA

Genomic Screening with RNAi: Results and Challenges

(2010) Stephanie Mohr et al.   Annual Review of Biochemistry

Fast and efficient dynamic nested effects models

(2010) Holger Fröhlich et al.   BIOINFORMATICS

Automated microscopy for high-content RNAi screening

(2010) Christian Conrad et al.   JOURNAL OF CELL BIOLOGY

RNAi Experiments in D. melanogaster: Solutions to the Overlooked Problem of Off-Targets Shared by Independent dsRNAs

(2010) Erwin Seinen et al.   PLoS One

An RNA replication-center assay for high content image-based quantifications of human rhinovirus and coxsackievirus infections

(2010) Andreas Jurgeit et al.   Virology Journal

Nested effects models for learning signaling networks from perturbation data

(2009) Holger Fröhlich et al.   BIOMETRICAL JOURNAL

Statistical methods for analysis of high-throughput RNA interference screens

(2009) Amanda Birmingham et al.   NATURE METHODS

Complex Systems: From Chemistry to Systems Biology Special Feature: Modeling the temporal interplay of molecular signaling and gene expression by using dynamic nested effects models

(2009) B. Anchang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rhinovirus-Induced Major Airway Mucin Production Involves a Novel TLR3-EGFR–Dependent Pathway

(2008) Lingxiang Zhu et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY