Free Fermions on vertices of distance-regular graphs are considered. Bipartitions are defined by taking as one part all vertices at a given distance from a reference vertex. The ground state is constructed by filling all states below a certain energy. Borrowing concepts from time and band limiting problems, algebraic Heun operators and Terwilliger algebras, it is shown how to obtain, quite generally, a block tridiagonal matrix that commutes with the entanglement Hamiltonian. The case of the Hadamard graphs is studied in detail within that framework and the existence of the commuting matrix is shown to allow for an analytic diagonalization of the restricted two-point correlation matrix and hence for an explicit determination of the entanglement entropy.

The cytoskeleton in eukaryotic cells plays several crucial roles. In terms of intracellular transport, motor proteins use the cytoskeletal filaments as a backbone along which they can actively transport biological cargos such as vesicles carrying biochemical reactants. Crossings between such filaments constitute a key element, as they may serve to alter the destination of such payload. Although motor proteins are known to display a rich behaviour at such crossings, the latter have so far only been modelled as simple branching points. Here we explore a model for a crossing between two microtubules which retains the individual tracks consisting of protofilaments, and we construct a schematic representation of the transport paths. We study collective transport exemplified by the Totally Asymmetric Simple Exclusion Process (TASEP), and provide a full analysis of the transport features and the associated phase diagram, by a generic mean-field approach which we confirm through particle-based stochastic simulations. In particular we show that transport through such a compound crossing cannot be approximated from a coarse-grained structure with a simple branching point. Instead, it gives rise to entirely new and counterintuitive features: the fundamental current-density relation for traffic flow is no longer a single-valued function, and it furthermore differs according to whether it is observed upstream or downstream from the crossing. We argue that these novel features may be directly relevant for interpreting experimental measurements.

The cellular cytoplasm is organized into compartments. Phase separation is a simple manner to create membraneless compartments in order to confine and localize particles like proteins. In many cases, these particles are bound to fluctuating polymers like DNA or RNA. We propose a general theoretical framework for such polymer-bound particles and derive an effective 1D lattice gas model with both nearest-neighbor and emergent long-range interactions arising from looped configurations of the fluctuating polymer. We argue that 1D phase transitions exist in such systems for both Gaussian and self-avoiding polymers and, using a variational method that goes beyond mean-field theory, we obtain the complete mean occupation-temperature phase diagram. To illustrate this model, we apply it to the biologically relevant case of ParABS, a prevalent bacterial DNA segregation system.

Genetic programs operating in a history-dependent fashion are ubiquitous in nature and govern sophisticated processes such as development and differentiation. The ability to systematically and predictably encode such programs would advance the engineering of synthetic organisms and ecosystems with rich signal processing abilities. Here we implement robust, scalable history-dependent programs by distributing the computational labor across a cellular population. Our design is based on standardized recombinase-driven DNA scaffolds expressing different genes according to the order of occurrence of inputs. These multicellular computing systems are highly modular, do not require cell-cell communication channels, and any program can be built by differential composition of strains containing well-characterized logic scaffolds. We developed automated workflows that researchers can use to streamline program design and optimization. We anticipate that the history-dependent programs presented here will support many applications using cellular populations for material engineering, biomanufacturing and healthcare.

The generating functions of degeneracies of D4-D2-D0 black holes in Type IIstring compactifications on Calabi-Yau threefolds are examples of (higher depth) mock modular forms. I'll explain how S-duality can be used to derive an explicit form for their modular completions, which becomes particularly simple in the presence of a refinement. This result turns out to have many applications going beyond the original context. In particular, I'll show that it can be usedi) to reproduce and generalize in an easy way the known results on modular properties of the generating functions of BPS dyons in N=4 string compactifications;ii) to find Vafa-Witten invariants of arbitrary(!) rank on CP^2, Hirzebruch and del Pezzo surfaces; iii) to obtain holomorphic anomaly equations for BPS partition functions;iv) to reveal a non-commutative structure induced by the refinement on the moduli space of compactified theory.