- John S Garavelli, University of Delaware
- Adam Godzik, Sanford-Burnham Medical Research Institute and UCSD
- Igor Jurisica, Ontario Cancer Institute
- Adam Olshen, University of California, San Francisco
- Hanchuan Peng, Allen Institute for Brain Science
- Graziano Pesole, University of Bari
- Olivier Poch, ICube Laboratory, Strasbourg
- Mihai Pop, University of Maryland
- Hagit Shatkay, University of Delaware
- Irene Pala, BioMed Central
The implementation of the first O(n)-time and O(n)-space algorithm using suffix arrays outperforms existing tools for computing the minimal absent words of a given sequence, without the use of data structures and with increased efficiency in terms of speed and memory.
The taxonomic classifier AKE (Accelerated k-mer Exploration web-tool), based on a data-driven hierarchical model and parallel computing, allows faster classification and visual inspection of whole metagenome data sets.
A new set of algorithms that inspect the structure and relationship between gene functions and phenotypes through correlation modeling independently of semantic analysis, can be used to infer functional biological knowledge potentially overlooked through lexical or semantic similarity measures.
The Bio3D package includes new methods for the analysis and visualization of protein dynamics both from experimental and simulated data, integrated with tools for comparative analysis of evolutionary related protein structures and systematic retrieval of publicly available sequence and structural data.
BMC Bioinformatics 2015, 16:169
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