Modular, scriptable and automated analysis tools for high-throughput peptide mass fingerprinting. - Jim Samuelsson; Daniel Dalevi; Fredrik Levander; Thorsteinn S. Rögnvaldsson (Bioinform., 2004)

The Peres-Shields Order Estimator for Fixed and Variable Length Markov Models with Applications to DNA Sequence Similarity. - Daniel Dalevi; Devdatt P. Dubhashi (WABI, 2005)

Bayesian classifiers for detecting HGT using fixed and variable order markov models of genomic signatures. - Daniel Dalevi; Devdatt P. Dubhashi; Malte Hermansson (Bioinform., 2006)

Inferring evolution in bacteria using Markov chains and genomic signatures. - Daniel Dalevi (2006)

Identification of putative regulatory upstream ORFs in the yeast genome using heuristics and evolutionary conservation. - Marija Cvijovic; Daniel Dalevi; Elizabeth Bilsland; Graham J. L. Kemp; Per Sunnerhagen (BMC Bioinform., 2007)

Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool. - Daniel Dalevi; Todd Z. DeSantis; Jakob Fredslund; Gary L. Andersen; Victor M. Markowitz; Philip Hugenholtz (BMC Bioinform., 2007)

Annotation of metagenome short reads using proxygenes. - Daniel Dalevi; Natalia Ivanova; Konstantinos Mavrommatis; Sean D. Hooper; Ernest Szeto; Philip Hugenholtz; Nikos Kyrpides; Victor M. Markowitz (ECCB, 2008)

Expected gene-order distances and model selection in bacteria. - Daniel Dalevi; Niklas Eriksen (Bioinform., 2008)

IMG/M: a data management and analysis system for metagenomes. - Victor M. Markowitz; Natalia Ivanova; Ernest Szeto; Krishna Palaniappan; Ken Chu; Daniel Dalevi; I-Min A. Chen; Yuri Grechkin; Inna Dubchak; Iain Anderson; Athanasios Lykidis; Konstantinos Mavrommatis; et al. (Nucleic Acids Res., 2008)

ShotgunFunctionalizeR: an R-package for functional comparison of metagenomes. - Erik Kristiansson; Philip Hugenholtz; Daniel Dalevi (Bioinform., 2009)

Estimating DNA coverage and abundance in metagenomes using a gamma approximation. - Sean D. Hooper; Daniel Dalevi; Amrita Pati; Konstantinos Mavrommatis; Natalia Ivanova; Nikos Kyrpides (Bioinform., 2010)

Data Science Solution to Event Prediction in Outsourced Clinical Trial Models. - Daniel Dalevi; Susan Lovick; Helen Mann; Paul D. Metcalfe; Stuart Spencer; Sally Hollis; David Ruau (MedInfo, 2015)