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Algorithms

A Novel Alignment-Free Method for Comparing Transcription Factor Binding Site Motifs

Minli Xu, Zhengchang Su

Dermatoglyphics from All Chinese Ethnic Groups Reveal Geographic Patterning

Hai-Guo Zhang, Yao-Fong Chen, [ ... ], Ren-Biao Chen

Dynamic Networks from Hierarchical Bayesian Graph Clustering

Yongjin Park, Cristopher Moore, Joel S. Bader

Reaction Factoring and Bipartite Update Graphs Accelerate the Gillespie Algorithm for Large-Scale Biochemical Systems

Sagar Indurkhya, Jacob Beal

Site and Strain-Specific Variation in Gut Microbiota Profiles and Metabolism in Experimental Mice

Melissa K. Friswell, Helen Gika, [ ... ], Andrew J. McBain

Parameter Identifiability and Redundancy in a General Class of Stochastic Carcinogenesis Models

Mark P. Little, Wolfgang F. Heidenreich, Guangquan Li

AutoEPG: Software for the Analysis of Electrical Activity in the Microcircuit Underpinning Feeding Behaviour of Caenorhabditis elegans

James Dillon, Ioannis Andrianakis, [ ... ], Christopher James

Pebble and Rock Band: Heuristic Resolution of Repeats and Scaffolding in the Velvet Short-Read de Novo Assembler

Daniel R. Zerbino, Gayle K. McEwen, Elliott H. Margulies, Ewan Birney

Vector Field Embryogeny

Till Steiner, Yaochu Jin, Bernhard Sendhoff

A High-Throughput DNA Sequence Aligner for Microbial Ecology Studies

Patrick D. Schloss

Effective Identification of Conserved Pathways in Biological Networks Using Hidden Markov Models

Xiaoning Qian, Byung-Jun Yoon

Generating Triangulated Macromolecular Surfaces by Euclidean Distance Transform

Dong Xu, Yang Zhang

Scalable Steady State Analysis of Boolean Biological Regulatory Networks

Ferhat Ay, Fei Xu, Tamer Kahveci

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