31 citations · 95 across the 5 of their papers we have counts for
5 papers
The jigsaw puzzle of sequence phenotype inference: Piecing together Shannon entropy, importance sampling, and Empirical Bayes
Zeina Shreif, Deborah A. Striegel, Vipul Periwal
A nucleotide sequence 35 base pairs long can take 1,180,591,620,717,411,303,424 possible values. An example of systems biology datasets, protein binding microarrays, contain activi…
Scaling Behavior of Quantum Nanosystems: Emergence of Quasi-particles, Collective Modes, and Mixed Exchange Symmetry States
Zeina Shreif, Peter Ortoleva
Quantum nanosystems such as graphene nanoribbons or superconducting nanoparticles are studied via a multiscale approach. Long space-time dynamics is derived using a perturbation ex…
Self-Assembly of Nanocomponents into Composite Structures: Derivation and Simulation of Langevin Equations
Stephen Pankavich, Zeina Shreif, Yinglong Miao +1
The kinetics of the self-assembly of nanocomponents into a virus, nanocapsule, or other composite structure is analyzed via a multiscale approach. The objective is to achieve predi…
Multiscaling for Classical Nanosystems: Derivation of Smoluchowski and Fokker-Planck Equations
Stephen Pankavich, Zeina Shreif, Peter Ortoleva
Using multiscale analysis and methods of statistical physics, we show that a solution to the N-atom Liouville Equation can be decomposed via an expansion in terms of a smallness pa…
Stochastic Dynamics of Bionanosystems: Multiscale Analysis and Specialized Ensembles
Stephen Pankavich, Yinglong Miao, Jamil Ortoleva +2
An approach for simulating bionanosystems, such as viruses and ribosomes, is presented. This calibration-free approach is based on an all-atom description for bionanosystems, a uni…