PLoS Comput Biol Volume 2(4); April 2006

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Volume 2(4); April 2006

Correspondence

The Signal in the Genomes

David Sankoff

PLoS Comput Biol. 2006 April; 2(4): e35. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020035.

PMCID: PMC1447653

| Full Text | PDF–57K |

Education

Practical Strategies for Discovering Regulatory DNA Sequence Motifs

Kenzie D MacIsaac and Ernest Fraenkel

PLoS Comput Biol. 2006 April; 2(4): e36. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020036.

PMCID: PMC1447654

| Full Text | PDF–570K |

Research Articles

A Model for Integrating Elementary Neural Functions into Delayed-Response Behavior

Thomas Gisiger and Michel Kerszberg

PLoS Comput Biol. 2006 April; 2(4): e25. Prepublished online 2006 February 16. Published online 2006 April 7. doi: 10.1371/journal.pcbi.0020025.

PMCID: PMC1428791

Folding Very Short Peptides Using Molecular Dynamics

Bosco K Ho and Ken A Dill

PLoS Comput Biol. 2006 April; 2(4): e27. Published online 2006 April 14. doi: 10.1371/journal.pcbi.0020027.

PMCID: PMC1435986

Conformational Changes in Protein Loops and Helices Induced by Post-Translational Phosphorylation

Eli S Groban, Arjun Narayanan, and Matthew P Jacobson

PLoS Comput Biol. 2006 April; 2(4): e32. Prepublished online 2006 March 1. Published online 2006 April 21. doi: 10.1371/journal.pcbi.0020032.

PMCID: PMC1440919

Identification and Classification of Conserved RNA Secondary Structures in the Human Genome

Jakob Skou Pedersen, Gill Bejerano, Adam Siepel, Kate Rosenbloom, Kerstin Lindblad-Toh, Eric S Lander, Jim Kent, Webb Miller, and David Haussler

PLoS Comput Biol. 2006 April; 2(4): e33. Prepublished online 2006 March 6. Published online 2006 April 21. doi: 10.1371/journal.pcbi.0020033.

PMCID: PMC1440920

SAGE2Splice: Unmapped SAGE Tags Reveal Novel Splice Junctions

Byron Yu-Lin Kuo, Ying Chen, Slavita Bohacec, Öjvind Johansson, Wyeth W Wasserman, and Elizabeth M Simpson

PLoS Comput Biol. 2006 April; 2(4): e34. Prepublished online 2006 March 9. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020034.

PMCID: PMC1447652

Codon Usage Domains over Bacterial Chromosomes

Marc Bailly-Bechet, Antoine Danchin, Mudassar Iqbal, Matteo Marsili, and Massimo Vergassola

PLoS Comput Biol. 2006 April; 2(4): e37. Published online 2006 April 21. doi: 10.1371/journal.pcbi.0020037.

PMCID: PMC1447655

Positive Selection, Relaxation, and Acceleration in the Evolution of the Human and Chimp Genome

Leonardo Arbiza, Joaquín Dopazo, and Hernán Dopazo

PLoS Comput Biol. 2006 April; 2(4): e38. Prepublished online 2006 March 15. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020038.

PMCID: PMC1447656

Changing Cellular Location of CheZ Predicted by Molecular Simulations

Karen Lipkow

PLoS Comput Biol. 2006 April; 2(4): e39. Prepublished online 2006 March 15. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020039.

PMCID: PMC1447658

| Abstract | Full Text | PDF–674K |

Designing a Nanotube Using Naturally Occurring Protein Building Blocks

Chung-Jung Tsai, Jie Zheng, and Ruth Nussinov

PLoS Comput Biol. 2006 April; 2(4): e42. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020042.

PMCID: PMC1447657

| Abstract | Full Text | PDF–616K |

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		Other Issues: previous \| next \| latest \| archive Volume 2(4); April 2006 Correspondence The Signal in the Genomes David Sankoff PLoS Comput Biol. 2006 April; 2(4): e35. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020035. PMCID: PMC1447653 \| Full Text \| PDF–57K \| Education Practical Strategies for Discovering Regulatory DNA Sequence Motifs Kenzie D MacIsaac and Ernest Fraenkel PLoS Comput Biol. 2006 April; 2(4): e36. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020036. PMCID: PMC1447654 \| Full Text \| PDF–570K \| Research Articles A Model for Integrating Elementary Neural Functions into Delayed-Response Behavior Thomas Gisiger and Michel Kerszberg PLoS Comput Biol. 2006 April; 2(4): e25. Prepublished online 2006 February 16. Published online 2006 April 7. doi: 10.1371/journal.pcbi.0020025. PMCID: PMC1428791 \| Abstract \| Full Text \| PDF–809K \| Supplementary Material \| Folding Very Short Peptides Using Molecular Dynamics Bosco K Ho and Ken A Dill PLoS Comput Biol. 2006 April; 2(4): e27. Published online 2006 April 14. doi: 10.1371/journal.pcbi.0020027. PMCID: PMC1435986 \| Abstract \| Full Text \| PDF–378K \| Correction \| Conformational Changes in Protein Loops and Helices Induced by Post-Translational Phosphorylation Eli S Groban, Arjun Narayanan, and Matthew P Jacobson PLoS Comput Biol. 2006 April; 2(4): e32. Prepublished online 2006 March 1. Published online 2006 April 21. doi: 10.1371/journal.pcbi.0020032. PMCID: PMC1440919 \| Abstract \| Full Text \| PDF–492K \| Supplementary Material \| Identification and Classification of Conserved RNA Secondary Structures in the Human Genome Jakob Skou Pedersen, Gill Bejerano, Adam Siepel, Kate Rosenbloom, Kerstin Lindblad-Toh, Eric S Lander, Jim Kent, Webb Miller, and David Haussler PLoS Comput Biol. 2006 April; 2(4): e33. Prepublished online 2006 March 6. Published online 2006 April 21. doi: 10.1371/journal.pcbi.0020033. PMCID: PMC1440920 \| Abstract \| Full Text \| PDF–1.1M \| Supplementary Material \| SAGE2Splice: Unmapped SAGE Tags Reveal Novel Splice Junctions Byron Yu-Lin Kuo, Ying Chen, Slavita Bohacec, Öjvind Johansson, Wyeth W Wasserman, and Elizabeth M Simpson PLoS Comput Biol. 2006 April; 2(4): e34. Prepublished online 2006 March 9. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020034. PMCID: PMC1447652 \| Abstract \| Full Text \| PDF–590K \| Supplementary Material \| Codon Usage Domains over Bacterial Chromosomes Marc Bailly-Bechet, Antoine Danchin, Mudassar Iqbal, Matteo Marsili, and Massimo Vergassola PLoS Comput Biol. 2006 April; 2(4): e37. Published online 2006 April 21. doi: 10.1371/journal.pcbi.0020037. PMCID: PMC1447655 \| Abstract \| Full Text \| PDF–478K \| Supplementary Material \| Positive Selection, Relaxation, and Acceleration in the Evolution of the Human and Chimp Genome Leonardo Arbiza, Joaquín Dopazo, and Hernán Dopazo PLoS Comput Biol. 2006 April; 2(4): e38. Prepublished online 2006 March 15. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020038. PMCID: PMC1447656 \| Abstract \| Full Text \| PDF–631K \| Supplementary Material \| Changing Cellular Location of CheZ Predicted by Molecular Simulations Karen Lipkow PLoS Comput Biol. 2006 April; 2(4): e39. Prepublished online 2006 March 15. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020039. PMCID: PMC1447658 \| Abstract \| Full Text \| PDF–674K \| Designing a Nanotube Using Naturally Occurring Protein Building Blocks Chung-Jung Tsai, Jie Zheng, and Ruth Nussinov PLoS Comput Biol. 2006 April; 2(4): e42. Published online 2006 April 28. doi: 10.1371/journal.pcbi.0020042. PMCID: PMC1447657 \| Abstract \| Full Text \| PDF–616K \|
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