Journal of Computer Science & Systems Biology

Michal Brylinski

Publications

• Research Article
  Setting up a Meta-Threading Pipeline for High-Throughput Structural Bioinformatics: eThread Software Distribution, Walkthrough and Resource Profiling
  Author(s): Michal Brylinski and Wei P. FeinsteinMichal Brylinski and Wei P. Feinstein
  
  eThread, a meta-threading and machine learning-based approach, is designed to effectively identify structural templates for use in protein structure and function modeling from genomic data. This is an essential methodology for high-throughput structural bioinformatics and critical for systems biology, where extensive knowledge of protein structures and functions at the systems level is prerequisite. eThread integrates a diverse collection of algorithms, therefore its deployment on a large multi-core system necessarily requires comprehensive profiling to ensure the optimal utilization of available resources. Resource profiling of eThread and the single-threading component algorithms indicate as wide range of demands with respect to wall clock time and host memory. Depending on the threading algorithm used, the modeling of a single protein sequence of up to 600 residues in length takes .. Read More»
  DOI: 10.4172/jcsb.1000094

  Abstract PDF