Bioinformatics of DNA
Volume 105, Issue 3 | March 2017
Special Issue Papers
By L. S. Heath, H. C. Bravo, M. Caccamo, and M. Schatz
By K. M. Steinberg, V. A. Schneider, C. Alkan, M. J. Montague, W. C. Warren, D. M. Church, and R. K. Wilson
This paper reviews the problems and algorithms of assembling a complete genome from millions of short DNA sequencing reads.
By S. Canzar and S. L. Salzberg
This paper discusses the challenge of mapping short DNA reads to an existing target genome, covering the approaches and the current tools for addressing this problem.
By X. Zhang, S. Liu, H. Cui, and T. Chen
This paper addresses the computational processing of metagenomic data, describing the typical pipeline of a variety of software tools for the task and the current state of the art.
By V. Jamilloux, J. Daron, F. Choulet, and H. Quesneville
This paper introduces a computational method for annotating an important class of repetitive sequences, called transposable elements, in the wheat genome.
By S. Ansari, C. Voichita, M. Donato, R. Tagett, and S. Draghici
This paper describes a new computational analysis method for gene expression data that utilizes all the data effectively for identifying the dynamics of biological pathways.
DANUBE: Data-Driven Meta-ANalysis Using UnBiased Empirical Distributions—Applied to Biological Pathway Analysis
By T. Nguyen, C. Mitrea, R. Tagett, and S. Draghici
This paper proposes DANUBE, a new unbiased method of statistical meta-analysis that is applied to combine the results of multiple experiments performed for the same biological condition.
Linking Statistical and Ecological Theory: Hubbell's Unified Neutral Theory of Biodiversity as a Hierarchical Dirichlet Process
By K. Harris, T. L. Parsons, U. Z. Ijaz, L. Lahti, I. Holmes, and C. Quince
This paper addresses the issue of a species occupying a specific ecological niche by introducing a new algorithmic model that overcomes shortcomings of the traditional neutral models.
By M. Mignardi, O. Ishaq, X. Qian, and C. Wählby
This paper reviews image processing techniques for measuring gene expression in different regions of tissue samples.
By R. M. Layer and A. R. Quinlan
This paper proposes a parallel algorithm for computing the intersection of multiple sets of genomic sequences.
By N. Dowlin, R. Gilad-Bachrach, K. Laine, K. Lauter, M. Naehrig, and J. Wernsing
This paper provides a new homomorphic encryption algorithm and associated software for bioinformatics to enhance the security and privacy associated with computing on human genomes.