10 problems

Let $\widetilde{\mathcal{M}}$ be a strongly connected linear compartmental model with at least one input and exactly one leak. A model is generically locally identifiable if its pa…

Let a Boolean network have a wiring diagram whose directed edges represent regulatory dependencies, with edges classified as positive or negative according to whether increasing th…

A signed interaction graph is balanced when its edge signs are consistent with a monotone structure; natural biological networks can then be compared with random networks having th…

Let a signal graph encode the nonzero signed entries of a sign-definite Jacobian matrix, with the sign of each cycle given by the product of the signs on its edges. A system is mul…

A phosphorylation network may contain reverse reactions in motifs of the form … where $y$ and $y'$ are complexes not containing the intermediate species $Y$. Reverse-reaction irrel…

A dose response is a relationship between an input dose and a measured steady-state output, and a non-monotonic response is one that is not monotone in the dose. An incoherent feed…

Functional-module specificity conjecture. Then this chemical, or set of chemicals, is specific for the respective functional module.

Let $\mathcal{M}$ be an unidentifiable linear compartmental model. Leak-addition conjecture. If one leak is added, the resulting model $\widetilde{\mathcal{M}}$ is also unidentifia…

The CRC-CRN is the colorectal-cancer-cell chemical reaction network described in the paper. The global stability condition is the condition introduced in Definition. Global stabili…

The paper considers a coherent type-1 feedforward loop (C1-FFL) whose output is matched to an intermediate approximation of the log-likelihood ratio for detecting persistent signal…