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Volume 4(1);  January 2008
Correspondence
Coping with Viral Diversity in HIV Vaccine Design: A Response to Nickle et al
Will Fischer, H. X Liao, Barton F Haynes, Norman L Letvin, and Bette Korber
PLoS Comput Biol. 2008 January; 4(1): e15. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040015.
PMCID: PMC2217576
Comparison of Immunogen Designs That Optimize Peptide Coverage: Reply to Fischer et al
David C Nickle, Nebojsa Jojic, David Heckerman, Vladimir Jojic, Darko Kirovski, Morgane Rolland, Sergei Kosakovsky Pond, and James I Mullins
PLoS Comput Biol. 2008 January; 4(1): e25. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040025.
PMCID: PMC2217581
Education
Strategies for Identifying RNA Splicing Regulatory Motifs and Predicting Alternative Splicing Events
Dirk Holste and Uwe Ohler
PLoS Comput Biol. 2008 January; 4(1): e21. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040021.
PMCID: PMC2217580
Message from ISCB
Getting Started in Text Mining
K. Bretonnel Cohen and Lawrence Hunter
PLoS Comput Biol. 2008 January; 4(1): e20. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040020.
PMCID: PMC2217579
Research Articles
Chemotaxis in Escherichia coli: A Molecular Model for Robust Precise Adaptation
Clinton H Hansen, Robert G Endres, and Ned S Wingreen
PLoS Comput Biol. 2008 January; 4(1): e1. Prepublished online 2007 November 20. Published online 2008 January 4. doi: 10.1371/journal.pcbi.0040001.
PMCID: PMC2174977
Genes and (Common) Pathways Underlying Drug Addiction
Chuan-Yun Li, Xizeng Mao, and Liping Wei
PLoS Comput Biol. 2008 January; 4(1): e2. Prepublished online 2007 November 20. Published online 2008 January 4. doi: 10.1371/journal.pcbi.0040002.
PMCID: PMC2174978
A Generic Mechanism for Adaptive Growth Rate Regulation
Chikara Furusawa and Kunihiko Kaneko
PLoS Comput Biol. 2008 January; 4(1): e3. Published online 2008 January 11. doi: 10.1371/journal.pcbi.0040003.
PMCID: PMC2186362
In Silico Detection of Sequence Variations Modifying Transcriptional Regulation
Malin C Andersen, Pär G Engström, Stuart Lithwick, David Arenillas, Per Eriksson, Boris Lenhard, Wyeth W Wasserman, and Jacob Odeberg
PLoS Comput Biol. 2008 January; 4(1): e5. Prepublished online 2007 November 27. Published online 2008 January 18. doi: 10.1371/journal.pcbi.0040005.
PMCID: PMC2211530
Evolution and Selection in Yeast Promoters: Analyzing the Combined Effect of Diverse Transcription Factor Binding Sites
Daniela Raijman, Ron Shamir, and Amos Tanay
PLoS Comput Biol. 2008 January; 4(1): e7. Published online 2008 January 11. doi: 10.1371/journal.pcbi.0040007.
PMCID: PMC2186363
Noise Propagation and Signaling Sensitivity in Biological Networks: A Role for Positive Feedback
Gil Hornung and Naama Barkai
PLoS Comput Biol. 2008 January; 4(1): e8. Prepublished online 2007 December 5. Published online 2008 January 4. doi: 10.1371/journal.pcbi.0040008.
PMCID: PMC2174979
A Quantitative Study of the Division Cycle of Caulobacter crescentus Stalked Cells
Shenghua Li, Paul Brazhnik, Bruno Sobral, and John J Tyson
PLoS Comput Biol. 2008 January; 4(1): e9. Prepublished online 2007 December 5. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040009.
PMCID: PMC2217572
Matt: Local Flexibility Aids Protein Multiple Structure Alignment
Matthew Menke, Bonnie Berger, and Lenore Cowen
PLoS Comput Biol. 2008 January; 4(1): e10. Published online 2008 January 11. doi: 10.1371/journal.pcbi.0040010.
PMCID: PMC2186361
Neuronal Firing Sensitivity to Morphologic and Active Membrane Parameters
Christina M Weaver and Susan L Wearne
PLoS Comput Biol. 2008 January; 4(1): e11. Prepublished online 2007 December 10. Published online 2008 January 18. doi: 10.1371/journal.pcbi.0040011.
PMCID: PMC2211531
Genomic Sequence Is Highly Predictive of Local Nucleosome Depletion
Guo-Cheng Yuan and Jun S Liu
PLoS Comput Biol. 2008 January; 4(1): e13. Prepublished online 2007 December 13. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040013.
PMCID: PMC2211532
Superhelical Destabilization in Regulatory Regions of Stress Response Genes
Huiquan Wang and Craig J Benham
PLoS Comput Biol. 2008 January; 4(1): e17. Published online 2008 January 18. doi: 10.1371/journal.pcbi.0040017.
PMCID: PMC2211533
Mechanics of Channel Gating of the Nicotinic Acetylcholine Receptor
Xinli Liu, Yechun Xu, Honglin Li, Xicheng Wang, Hualiang Jiang, and Francisco J Barrantes
PLoS Comput Biol. 2008 January; 4(1): e19. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040019.
PMCID: PMC2211534
Co-Regulation of Metabolic Genes Is Better Explained by Flux Coupling Than by Network Distance
Richard A Notebaart, Bas Teusink, Roland J Siezen, and Balázs Papp
PLoS Comput Biol. 2008 January; 4(1): e26. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040026.
PMCID: PMC2211535
Why is Real-World Visual Object Recognition Hard?
Nicolas Pinto, David D Cox, and James J DiCarlo
PLoS Comput Biol. 2008 January; 4(1): e27. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040027.
PMCID: PMC2211529
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