4 papers
Dynamics of ERK regulation in the processive limit
Carsten Conradi, Nida Obatake, Anne Shiu +1
We consider a model of extracellular signal-regulated kinase (ERK) regulation by dual-site phosphorylation and dephosphorylation, which exhibits bistability and oscillations, but l…
Identifiability of Linear Compartmental Models: The Effect of Moving Inputs, Outputs, and Leaks
Seth Gerberding, Nida Obatake, Anne Shiu
A mathematical model is identifiable if its parameters can be recovered from data. Here we investigate, for linear compartmental models, whether (local, generic) identifiability is…
Oscillations and bistability in a model of ERK regulation
Nida Obatake, Anne Shiu, Xiaoxian Tang +1
This work concerns the question of how two important dynamical properties, oscillations and bistability, emerge in an important biological signaling network. Specifically, we consi…
Neural ideals and stimulus space visualization
Elizabeth Gross, Nida Kazi Obatake, Nora Youngs
A neural code is a collection of binary vectors of a given length n that record the co-firing patterns of a set of neurons. Our focus is on neural codes arising from…