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Article
Open AccessUse of accounting concepts to study research: return on investment in XSEDE, a US cyberinfrastructure service
This paper uses accounting concepts—particularly the concept of Return on Investment (ROI)—to reveal the quantitative value of scientific research pertaining to a major US cyberinfrastructure project (XSEDE—th...
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Chapter and Conference Paper
Fast and Accurate Determination of Graph Node Connectivity Leveraging Approximate Methods
For an undirected graph G, the node connectivity K is defined as the minimum number of nodes that must be removed to make the graph disconnected. The determination of K is a computationally demanding task for lar...
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Article
Open AccessPyIR: a scalable wrapper for processing billions of immunoglobulin and T cell receptor sequences using IgBLAST
Recent advances in DNA sequencing technologies have enabled significant leaps in capacity to generate large volumes of DNA sequence data, which has spurred a rapid growth in the use of bioinformatics as a mean...
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Article
High frequency of shared clonotypes in human B cell receptor repertoires
The human genome contains approximately 20 thousand protein-coding genes1, but the size of the collection of antigen receptors of the adaptive immune system that is generated by the recombination of gene segments...
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Article
Open AccessNetwork Cosmology
Prediction and control of the dynamics of complex networks is a central problem in network science. Structural and dynamical similarities of different real networks suggest that some universal laws might accur...
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Article
Open AccessComponents of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation
Activation of naïve B lymphocytes by extracellular ligands, e.g. antigen, lipopolysaccharide (LPS) and CD40 ligand, induces a combination of common and ligand-specific phenotypic changes through complex signal...
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Article
Nonlinear acoustics in granular assemblies
We present a brief review of the problem of acoustic propagation in granular media and discuss recent progress on nonlinear acoustics in granular media. The presentation emphasizes the solitary wave like prop...
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Article
Computer simulation of random sequential adsorption of two interacting species on a lattice
A computer-simulation model is introduced to study the variation in the coverage and porosity in a binary system by random sequential adsorption on a periodic square lattice. We study the effects of the range ...
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Article
Molecular Dynamics Simulations of Shock-Defect Interactions in Two-Dimensional Nonreactive Crystals
The interactions of shocks with defects in two-dimensional square and hexagonal lattices of particles interacting through Lennard-Jones potentials are studied using molecular dynamics. In perfect lattices at z...
