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Computational techniques

Alignment-Free Design of Highly Discriminatory Diagnostic Primer Sets for Escherichia coli O104:H4 Outbreak Strains

Leighton Pritchard, Nicola J. Holden, [ ... ], Ian K. Toth

Skip the Alignment: Degenerate, Multiplex Primer and Probe Design Using K-mer Matching Instead of Alignments

David A. Hysom, Pejman Naraghi-Arani, [ ... ], Shea N. Gardner

Treelength Optimization for Phylogeny Estimation

Kevin Liu, Tandy Warnow

Phylo: A Citizen Science Approach for Improving Multiple Sequence Alignment

Alexander Kawrykow, Gary Roumanis, [ ... ], Jérôme Waldispühl

Optimization of Time-Course Experiments for Kinetic Model Discrimination

Nuno F. Lages, Carlos Cordeiro, [ ... ], António E. N. Ferreira

Detecting Remote Sequence Homology in Disordered Proteins: Discovery of Conserved Motifs in the N-Termini of Mononegavirales phosphoproteins

David Karlin, Robert Belshaw

Diversity Measures in Environmental Sequences Are Highly Dependent on Alignment Quality—Data from ITS and New LSU Primers Targeting Basidiomycetes

Dirk Krüger, Danuta Kapturska, [ ... ], Tesfaye Wubet

Exploiting Gene Families for Phylogenomic Analysis of Myzostomid Transcriptome Data

Stefanie Hartmann, Conrad Helm, [ ... ], Christoph Bleidorn

Accounting For Alignment Uncertainty in Phylogenomics

Martin Wu, Sourav Chatterji, Jonathan A. Eisen

Two-Stage Clustering (TSC): A Pipeline for Selecting Operational Taxonomic Units for the High-Throughput Sequencing of PCR Amplicons

Xiao-Tao Jiang, Hai Zhang, [ ... ], Hong-Wei Zhou

Armadillo 1.1: An Original Workflow Platform for Designing and Conducting Phylogenetic Analysis and Simulations

Etienne Lord, Mickael Leclercq, [ ... ], Vladimir Makarenkov

Identification of Domains and Amino Acids Essential to the Collagen Galactosyltransferase Activity of GLT25D1

Claire Perrin-Tricaud, Christoph Rutschmann, Thierry Hennet

Special Agents Can Promote Cooperation in the Population

Xin Wang, Jing Han, Huawei Han

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