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Table of Contents: March 2007

COVER

Location and nature of the differences between alternative splicing isoforms

Image Credit: Image created by David Talavera, Christine Vogel, and Xavier de la Cruz with PyMOL
Issue Image

Sequence changes introduced by alternative splicing and gene duplication are usually different. Shown here is the location and nature (using a hydrophobicity scale) of the differences between alternative splicing isoforms of MAPK9 (left), and between MAPK9 and the paralogs MAPK10 (center) and MAPK13 (right) (see Talavera et al).

Editorial

Ten Simple Rules for a Successful Collaboration

Quentin Vicens, Philip E Bourne

Education

Research Articles

Structural Descriptors of gp120 V3 Loop for the Prediction of HIV-1 Coreceptor Usage

Oliver Sander, Tobias Sing, Ingolf Sommer, Andrew J Low, Peter K Cheung, P. Richard Harrigan, Thomas Lengauer, Francisco S Domingues

Discovering Motifs in Ranked Lists of DNA Sequences

Eran Eden, Doron Lipson, Sivan Yogev, Zohar Yakhini

Positive and Negative Design in Stability and Thermal Adaptation of Natural Proteins

Igor N Berezovsky, Konstantin B Zeldovich, Eugene I Shakhnovich

Dynamic Simulations on the Arachidonic Acid Metabolic Network

Kun Yang, Wenzhe Ma, Huanhuan Liang, Qi Ouyang, Chao Tang, Luhua Lai

Posttranscriptional Expression Regulation: What Determines Translation Rates?

Regina Brockmann, Andreas Beyer, Jürgen J Heinisch, Thomas Wilhelm

(A)Symmetric Stem Cell Replication and Cancer

David Dingli, Arne Traulsen, Franziska Michor

Global Discriminative Learning for Higher-Accuracy Computational Gene Prediction

Axel Bernal, Koby Crammer, Artemis Hatzigeorgiou, Fernando Pereira

Characterization and Identification of MicroRNA Core Promoters in Four Model Species

Xuefeng Zhou, Jianhua Ruan, Guandong Wang, Weixiong Zhang

A Look Inside HIV Resistance through Retroviral Protease Interaction Maps

Aleksejs Kontijevskis, Peteris Prusis, Ramona Petrovska, Sviatlana Yahorava, Felikss Mutulis, Ilze Mutule, Jan Komorowski, Jarl E. S Wikberg

The Stem Cell Population of the Human Colon Crypt: Analysis via Methylation Patterns

Pierre Nicolas, Kyoung-Mee Kim, Darryl Shibata, Simon Tavaré

PPARα siRNA–Treated Expression Profiles Uncover the Causal Sufficiency Network for Compound-Induced Liver Hypertrophy

Xudong Dai, Angus T. De Souza, Hongyue Dai, David L Lewis, Chang-kyu Lee, Andy G Spencer, Hans Herweijer, Jim E Hagstrom, Peter S Linsley, Douglas E Bassett, Roger G Ulrich, Yudong D He

The (In)dependence of Alternative Splicing and Gene Duplication

David Talavera, Christine Vogel, Modesto Orozco, Sarah A Teichmann, Xavier de la Cruz

Spatial Acuity and Prey Detection in Weakly Electric Fish

David Babineau, John E Lewis, André Longtin

Correction