In this paper, we propose a stochastic simulation to model and analyze cellular signal transduction. The high number of objects in a simulation requires advanced visualization tec...
Martin Falk, Michael Klann, Matthias Reuss, Thomas...
Background: Normal mode analysis (NMA) has become the method of choice to investigate the slowest motions in macromolecular systems. NMA is especially useful for large biomolecula...
Summary: We developed a Python package, ProDy, for structurebased analysis of protein dynamics. ProDy allows for quantitative characterization of structural variations in heteroge...
Background: Multivariate ordination methods are powerful tools for the exploration of complex data structures present in microarray data. These methods have several advantages com...
Florent Baty, Daniel Jaeger, Frank Preiswerk, Mart...
Background: Many vital biological processes, including transcription and splicing, require a combination of short, degenerate sequence patterns, or motifs, adjacent to defined seq...
Micah Hamady, Erin Peden, Rob Knight, Ravinder Sin...