Information transmission in genetic regulatory networks: a review

Predicting Gene-Regulation Functions: Lessons from Temperate Bacteriophages

(2010) Vladimir B. Teif   BIOPHYSICAL JOURNAL

The gap gene network

(2010) Johannes Jaeger   CELLULAR AND MOLECULAR LIFE SCIENCES

The Bicoid Morphogen System

(2010) Aude Porcher et al.   CURRENT BIOLOGY

Predicting embryonic patterning using mutual entropy fitness and in silico evolution

(2010) P. Francois et al.   DEVELOPMENT

Mutual information in time-varying biochemical systems

(2010) Filipe Tostevin et al.   PHYSICAL REVIEW E

Effect of feedback on the fidelity of information transmission of time-varying signals

(2010) Wiet Hendrik de Ronde et al.   PHYSICAL REVIEW E

Optimizing information flow in small genetic networks. II. Feed-forward interactions

(2010) Aleksandra M. Walczak et al.   PHYSICAL REVIEW E

Information-Optimal Transcriptional Response to Oscillatory Driving

(2010) Andrew Mugler et al.   PHYSICAL REVIEW LETTERS

Optimal population coding by noisy spiking neurons

(2010) G. Tkacik et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Retina is structured to process an excess of darkness in natural scenes

(2010) C. P. Ratliff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nucleosome-mediated cooperativity between transcription factors

(2010) L. A. Mirny   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacterial strategies for chemotaxis response

(2010) A. Celani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcription by the numbers redux: experiments and calculations that surprise

(2010) Hernan G. Garcia et al.   TRENDS IN CELL BIOLOGY

Design of a Trichromatic Cone Array

(2010) Patrick Garrigan et al.   PLoS Computational Biology

Information processing and signal integration in bacterial quorum sensing

(2009) Pankaj Mehta et al.   Molecular Systems Biology

From DNA sequence to transcriptional behaviour: a quantitative approach

(2009) Eran Segal et al.   NATURE REVIEWS GENETICS

Using DNA mechanics to predict in vitro nucleosome positions and formation energies

(2009) Alexandre V. Morozov et al.   NUCLEIC ACIDS RESEARCH

Morphogen profiles can be optimized to buffer against noise

(2009) Timothy E. Saunders et al.   PHYSICAL REVIEW E

Spectral solutions to stochastic models of gene expression with bursts and regulation

(2009) Andrew Mugler et al.   PHYSICAL REVIEW E

Diffusion, dimensionality, and noise in transcriptional regulation

(2009) Gašper Tkačik et al.   PHYSICAL REVIEW E

Optimizing information flow in small genetic networks

(2009) Gašper Tkačik et al.   PHYSICAL REVIEW E

Mutual Information between Input and Output Trajectories of Biochemical Networks

(2009) Filipe Tostevin et al.   PHYSICAL REVIEW LETTERS

The minimum information principle and its application to neural code analysis

(2009) A. Globerson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolutionary selection between alternative modes of gene regulation

(2009) U. Gerland et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A stochastic spectral analysis of transcriptional regulatory cascades

(2009) A. M. Walczak et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of deviations from optimality in biological systems

(2009) A. Perez-Escudero et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predictable irregularities in retinal receptive fields

(2009) Y. S. Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Design of a Neuronal Array

(2008) B. G. Borghuis et al.   JOURNAL OF NEUROSCIENCE

Optimizing the readout of morphogen gradients

(2008) Eldon Emberly   PHYSICAL REVIEW E

Information capacity of genetic regulatory elements

(2008) Gašper Tkačik et al.   PHYSICAL REVIEW E

The Role of Input Noise in Transcriptional Regulation

(2008) Gašper Tkačik et al.   PLoS One

Information flow and optimization in transcriptional regulation

(2008) G. Tkacik et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA