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Hidden Markov models

Multicoil2: Predicting Coiled Coils and Their Oligomerization States from Sequence in the Twilight Zone

Jason Trigg, Karl Gutwin, Amy E. Keating, Bonnie Berger

The RelA/SpoT Homolog (RSH) Superfamily: Distribution and Functional Evolution of ppGpp Synthetases and Hydrolases across the Tree of Life

Gemma C. Atkinson, Tanel Tenson, Vasili Hauryliuk

Transmission Dynamics of Methicillin-Resistant Staphylococcus aureus in a Medical Intensive Care Unit in India

Solomon Christopher, Rejina Mariam Verghis, [ ... ], Ben Symons Cooper

Explicit-Duration Hidden Markov Model Inference of UP-DOWN States from Continuous Signals

James M. McFarland, Thomas T. G. Hahn, Mayank R. Mehta

Elucidation of Functional Markers from Aspergillus nidulans Developmental Regulator FlbB and Their Phylogenetic Distribution

Marc S. Cortese, Oier Etxebeste, [ ... ], Unai Ugalde

The Contribution of Coevolving Residues to the Stability of KDO8P Synthase

Sharon H. Ackerman, Domenico L. Gatti

Hidden Markov Model Analysis of Maternal Behavior Patterns in Inbred and Reciprocal Hybrid Mice

Valeria Carola, Olivier Mirabeau, Cornelius T. Gross

Novel Analysis of Oceanic Surface Water Metagenomes Suggests Importance of Polyphosphate Metabolism in Oligotrophic Environments

Ben Temperton, Jack A. Gilbert, John P. Quinn, John W. McGrath

Evolutionary Distances in the Twilight Zone—A Rational Kernel Approach

Roland F. Schwarz, William Fletcher, [ ... ], Florian Markowetz

A Novel HMM-Based Method for Detecting Enriched Transcription Factor Binding Sites Reveals RUNX3 as a Potential Target in Pancreatic Cancer Biology

Liron Levkovitz, Nir Yosef, [ ... ], Yoram Oron

Single-Molecule Analysis Reveals the Kinetics and Physiological Relevance of MutL-ssDNA Binding

Jonghyun Park, Yongmoon Jeon, [ ... ], Jong-Bong Lee

HMMSplicer: A Tool for Efficient and Sensitive Discovery of Known and Novel Splice Junctions in RNA-Seq Data

Michelle T. Dimon, Katherine Sorber, Joseph L. DeRisi

Genome-Wide Identification of HrpL-Regulated Genes in the Necrotrophic Phytopathogen Dickeya dadantii 3937

Shihui Yang, Quan Peng, [ ... ], Ching-Hong Yang

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