Abstract The setoid model is a model of intensional type theory that validates certain extensionality principles, like function extensionality and propositional extensionality, the latter being a limited form of univalence that equates logically equivalent propositions. The appeal of this model construction is that it can be constructed in a small, intensional, type theoretic metatheory, therefore giving a method to boostrap extensionality. The setoid model has been recently adapted into a formal system, namely Setoid Type Theory (SeTT). SeTT is an extension of intensional Martin-Löf type theory with constructs that give full access to the extensionality principles that hold in the setoid model. Although already a rich theory as currently defined, SeTT currently lacks a way to internalize the notion of type beyond propositions, hence we want to extend SeTT with a universe of setoids. To this aim, we present the construction of a (non-univalent) universe of setoids within the setoid model, first as an inductive-recursive definition, which is then translated to an inductive-inductive definition and finally to an inductive family. These translations from more powerful definition schemas to simpler ones ensure that our construction can still be defined in a relatively small metatheory which includes a proof-irrelevant identity type with a strong transport rule.

We study the proof theory and the automatic proof search for a fragment of linear logic with context-sensitive deductions inspired by molecular biology. We formulate an intuitionistic (multiplicative) linear logic sequent calculus where sequents are decorated so to account for the biological constraints. We then draw on the literature to develop a generalized proof search technique that allows to automatically deal with context-sensitive deductions and non-monotonic reasoning. Finally, we present the implementation of a theorem prover that can be used to automatically verify biological pathways expressed as logical sequents.