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Table of Contents: November 2007

COVER

Trinucleotide disease as a genetic time bomb

Image Credit: Genia Brodsky, Weizmann Institute of Science
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A trinucleotide disease is like a genetic time bomb. A patient with such a disease inherits a DNA region consisting of a three-letter code repeated abnormally many times. The age at which the disease strikes the patient is encoded by the number of repeats. A universal mechanism by which this molecular time bomb operates in this broad family of hereditary diseases has been suggested (see Kaplan et al, e235).

Editorial

Ten Simple Rules for Graduate Students

Jenny Gu, Philip E Bourne

Education

Perspective

Research Articles

Using Likelihood-Free Inference to Compare Evolutionary Dynamics of the Protein Networks of H. pylori and P. falciparum

Oliver Ratmann, Ole Jørgensen, Trevor Hinkley, Michael Stumpf, Sylvia Richardson, Carsten Wiuf

CATHEDRAL: A Fast and Effective Algorithm to Predict Folds and Domain Boundaries from Multidomain Protein Structures

Oliver C Redfern, Andrew Harrison, Tim Dallman, Frances M. G Pearl, Christine A Orengo

Small Regulatory RNAs May Sharpen Spatial Expression Patterns

Erel Levine, Peter McHale, Herbert Levine

Intragenomic Matching Reveals a Huge Potential for miRNA-Mediated Regulation in Plants

Morten Lindow, Anders Jacobsen, Sanne Nygaard, Yuan Mang, Anders Krogh

Predicting Gene Expression from Sequence: A Reexamination

Yuan Yuan, Lei Guo, Lei Shen, Jun S Liu

Direct Inference of SNP Heterozygosity Rates and Resolution of LOH Detection

Xiaohong Li, Steven G Self, Patricia C Galipeau, Thomas G Paulson, Brian J Reid

Phenotypic Mutation Rates and the Abundance of Abnormal Proteins in Yeast

Martin Willensdorfer, Reinhard Bürger, Martin A Nowak

An Evolutionary-Network Model Reveals Stratified Interactions in the V3 Loop of the HIV-1 Envelope

Art F. Y Poon, Fraser I Lewis, Sergei L. Kosakovsky Pond, Simon D. W Frost

Self-organizing Mechanism for Development of Space-filling Neuronal Dendrites

Kaoru Sugimura, Kohei Shimono, Tadashi Uemura, Atsushi Mochizuki

A Nucleosome-Guided Map of Transcription Factor Binding Sites in Yeast

Leelavati Narlikar, Raluca Gordân, Alexander J Hartemink

Stochastic Noise and Synchronisation during Dictyostelium Aggregation Make cAMP Oscillations Robust

Jongrae Kim, Pat Heslop-Harrison, Ian Postlethwaite, Declan G Bates

Computational Analysis of Mouse piRNA Sequence and Biogenesis

Doron Betel, Robert Sheridan, Debora S Marks, Chris Sander

Genetic Progression and the Waiting Time to Cancer

Niko Beerenwinkel, Tibor Antal, David Dingli, Arne Traulsen, Kenneth W Kinzler, Victor E Velculescu, Bert Vogelstein, Martin A Nowak

A Dynamical Systems Hypothesis of Schizophrenia

Marco Loh, Edmund T Rolls, Gustavo Deco

Detecting Coevolution in and among Protein Domains

Chen-Hsiang Yeang, David Haussler