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Computational techniques

Evidence for Co-Evolution between Human MicroRNAs and Alu-Repeats

Stefan Lehnert, Peter Van Loo, [ ... ], Frans C. Schuit

Using Sequence Similarity Networks for Visualization of Relationships Across Diverse Protein Superfamilies

Holly J. Atkinson, John H. Morris, Thomas E. Ferrin, Patricia C. Babbitt

Ultraconserved Elements in the Olig2 Promoter

Christina T. L. Chen, David I. Gottlieb, Barak A. Cohen

FastBLAST: Homology Relationships for Millions of Proteins

Morgan N. Price, Paramvir S. Dehal, Adam P. Arkin

Probing Metagenomics by Rapid Cluster Analysis of Very Large Datasets

Weizhong Li, John C. Wooley, Adam Godzik

Conserved Secondary Structures in Aspergillus

Abigail Manson McGuire, James E. Galagan

Local Alignment Refinement Using Structural Assessment

Pierre Chodanowski, Aurélien Grosdidier, Ernest Feytmans, Olivier Michielin

An Automated Phylogenetic Tree-Based Small Subunit rRNA Taxonomy and Alignment Pipeline (STAP)

Dongying Wu, Amber Hartman, Naomi Ward, Jonathan A. Eisen

Complex Cooperative Networks from Evolutionary Preferential Attachment

Julia Poncela, Jesús Gómez-Gardeñes, [ ... ], Yamir Moreno

SP⁵: Improving Protein Fold Recognition by Using Torsion Angle Profiles and Profile-Based Gap Penalty Model

Wei Zhang, Song Liu, Yaoqi Zhou

Recombination and Population Mosaic of a Multifunctional Viral Gene, Adeno-Associated Virus cap

Yasuhiro Takeuchi, Richard Myers, Olivier Danos

Conservation, Variability and the Modeling of Active Protein Kinases

James D. R. Knight, Bin Qian, David Baker, Rashmi Kothary

Mutations in the UBIAD1 Gene, Encoding a Potential Prenyltransferase, Are Causal for Schnyder Crystalline Corneal Dystrophy

Andrew Orr, Marie-Pierre Dubé, [ ... ], Mark Samuels

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