| | Education Introduction to Computational Proteomics Jacques Colinge and Keiryn L Bennett PLoS Comput Biol. 2007 July; 3(7): e114. Published online 2007 July 27. doi: 10.1371/journal.pcbi.0030114.PMCID: PMC1933459 Review Quantitative Analysis of Cell Nucleus Organisation Carol Shiels, Niall M Adams, Suhail A Islam, David A Stephens, and Paul S Freemont PLoS Comput Biol. 2007 July; 3(7): e138. Published online 2007 July 27. doi: 10.1371/journal.pcbi.0030138.PMCID: PMC1933473 Research Articles Sarcomere Lattice Geometry Influences Cooperative Myosin Binding in Muscle Bertrand C. W Tanner, Thomas L Daniel, and Michael Regnier PLoS Comput Biol. 2007 July; 3(7): e115. Prepublished online 2007 May 10. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030115.PMCID: PMC1914368 Not All Scale-Free Networks Are Born Equal: The Role of the Seed Graph in PPI Network Evolution Fereydoun Hormozdiari, Petra Berenbrink, Nataša Pržulj, and S. Cenk Sahinalp PLoS Comput Biol. 2007 July; 3(7): e118. Published online 2007 July 6. doi: 10.1371/journal.pcbi.0030118.PMCID: PMC1913096 Protein–Protein Interaction Hotspots Carved into Sequences Yanay Ofran and Burkhard Rost PLoS Comput Biol. 2007 July; 3(7): e119. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030119.PMCID: PMC1914369 Evolution of Function in the “Two Dinucleotide Binding Domains” Flavoproteins Sunil Ojha, Elaine C Meng, and Patricia C Babbitt PLoS Comput Biol. 2007 July; 3(7): e121. Published online 2007 July 20. doi: 10.1371/journal.pcbi.0030121.PMCID: PMC1924876 Efficiency, Selectivity, and Robustness of Nucleocytoplasmic Transport Anton Zilman, Stefano Di Talia, Brian T Chait, Michael P Rout, and Marcelo O Magnasco PLoS Comput Biol. 2007 July; 3(7): e125. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030125.PMCID: PMC1914370 A Computational Pipeline for High- Throughput Discovery of cis-Regulatory Noncoding RNA in Prokaryotes Zizhen Yao, Jeffrey Barrick, Zasha Weinberg, Shane Neph, Ronald Breaker, Martin Tompa, and Walter L Ruzzo PLoS Comput Biol. 2007 July; 3(7): e126. Published online 2007 July 6. doi: 10.1371/journal.pcbi.0030126.PMCID: PMC1913097 Sensitivity Analysis of Intracellular Signaling Pathway Kinetics Predicts Targets for Stem Cell Fate Control Alborz Mahdavi, Ryan E Davey, Patrick Bhola, Ting Yin, and Peter W Zandstra PLoS Comput Biol. 2007 July; 3(7): e130. Prepublished online 2007 May 23. Published online 2007 July 6. doi: 10.1371/journal.pcbi.0030130.PMCID: PMC1913098 Global and Local Architecture of the Mammalian microRNA–Transcription Factor Regulatory Network Reut Shalgi, Daniel Lieber, Moshe Oren, and Yitzhak Pilpel PLoS Comput Biol. 2007 July; 3(7): e131. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030131.PMCID: PMC1914371 Novel Algorithms Reveal Streptococcal Transcriptomes and Clues about Undefined Genes Patricia A Ryan, Brian W Kirk, Chad W Euler, Raymond Schuch, and Vincent A Fischetti PLoS Comput Biol. 2007 July; 3(7): e132. Published online 2007 July 6. doi: 10.1371/journal.pcbi.0030132.PMCID: PMC1913099 Optimal Timing and Duration of Induction Therapy for HIV-1 Infection Marcel E Curlin, Shyamala Iyer, and John E Mittler PLoS Comput Biol. 2007 July; 3(7): e133. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030133.PMCID: PMC1914372 Adaptive, Fast Walking in a Biped Robot under Neuronal Control and Learning Poramate Manoonpong, Tao Geng, Tomas Kulvicius, Bernd Porr, and Florentin Wörgötter PLoS Comput Biol. 2007 July; 3(7): e134. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030134.PMCID: PMC1914373 Evolutionary History of Mammalian Transposons Determined by Genome-Wide Defragmentation Joti Giordano, Yongchao Ge, Yevgeniy Gelfand, György Abrusán, Gary Benson, and Peter E Warburton PLoS Comput Biol. 2007 July; 3(7): e137. Prepublished online 2007 June 1. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030137.PMCID: PMC1914374 A First-Principles Model of Early Evolution: Emergence of Gene Families, Species, and Preferred Protein Folds Konstantin B Zeldovich, Peiqiu Chen, Boris E Shakhnovich, and Eugene I Shakhnovich PLoS Comput Biol. 2007 July; 3(7): e139. Prepublished online 2007 June 4. Published online 2007 July 13. doi: 10.1371/journal.pcbi.0030139.PMCID: PMC1914367 Natively Unstructured Loops Differ from Other Loops Avner Schlessinger, Jinfeng Liu, and Burkhard Rost PLoS Comput Biol. 2007 July; 3(7): e140. Prepublished online 2007 June 5. Published online 2007 July 20. doi: 10.1371/journal.pcbi.0030140.PMCID: PMC1924875 Computationally Derived Points of Fragility of a Human Cascade Are Consistent with Current Therapeutic Strategies Deyan Luan, Michael Zai, and Jeffrey D Varner PLoS Comput Biol. 2007 July; 3(7): e142. Prepublished online 2007 June 7. Published online 2007 July 20. doi: 10.1371/journal.pcbi.0030142.PMCID: PMC1924874 Prediction of Gene Expression in Embryonic Structures of Drosophila melanogaster Anastasia A Samsonova, Mahesan Niranjan, Steven Russell, and Alvis Brazma PLoS Comput Biol. 2007 July; 3(7): e144. Published online 2007 July 20. doi: 10.1371/journal.pcbi.0030144.PMCID: PMC1924873 Detecting Emerging Transmissibility of Avian Influenza Virus in Human Households Michiel van Boven, Marion Koopmans, Mirna Du Ry van Beest Holle, Adam Meijer, Don Klinkenberg, Christl A Donnelly, and Hans (J. A. P.) Heesterbeek PLoS Comput Biol. 2007 July; 3(7): e145. Prepublished online 2007 June 8. Published online 2007 July 27. doi: 10.1371/journal.pcbi.0030145.PMCID: PMC1933478 Chemotaxis Receptor Complexes: From Signaling to Assembly Robert G Endres, Joseph J Falke, and Ned S Wingreen PLoS Comput Biol. 2007 July; 3(7): e150. Prepublished online 2007 June 15. Published online 2007 July 27. doi: 10.1371/journal.pcbi.0030150.PMCID: PMC1933480 Corrections Correction: Computational Model Explains High Activity and Rapid Cycling of Rho GTPases within Protein Complexes Andrew B Goryachev and Alexandra V Pokhilko PLoS Comput Biol. 2007 July; 3(7): e136. Published online 2007 July 27. doi: 10.1371/journal.pcbi.0030136.PMCID: PMC1933471 Corrects: Andrew B Goryachev, et al. Computational Model Explains High Activity and Rapid Cycling of Rho GTPases within Protein Complexes. PLoS Comput Biol. 2006 December; 2(12): e172. Correction: In Search of the Biological Significance of Modular Structures in Protein Networks Zhi Wang and Jianzhi Zhang PLoS Comput Biol. 2007 July; 3(7): e146. Published online 2007 July 27. doi: 10.1371/journal.pcbi.0030146.PMCID: PMC1933479 Corrects: Zhi Wang, et al. In Search of the Biological Significance of Modular Structures in Protein Networks. PLoS Comput Biol. 2007 June; 3(6): e107. Retraction: Measures of Clade Confidence Do Not Correlate with Accuracy of Phylogenetic Trees Barry G Hall and Stephen J Salipante PLoS Comput Biol. 2007 July; 3(7): e158. Published online 2007 July 20. doi: 10.1371/journal.pcbi.0030158.PMCID: PMC1924872 Corrects: Barry G Hall, et al. Measures of Clade Confidence Do Not Correlate with Accuracy of Phylogenetic Trees. PLoS Comput Biol. 2007 March; 3(3): e51. |