We study cluster categories arising from marked surfaces (with punctures and nonempty boundaries). By constructing skewed-gentle algebras, we show that there is a bijection between tagged curves and string objects. Applications include interpreting dimensions of Ext1 as intersection numbers of tagged curves and Auslander-Reiten translation as tagged rotation. An important consequence is that the cluster(-tilting) exchange graphs of such cluster categories are connected.

We show that the Kazhdan-Lusztig category KL_k of level-k finite-length modules with highest-weight composition factors for the affine Lie superalgebra gl(1|1)ˆ has vertex algebraic braided tensor supercategory structure, and that its full subcategory O_k^fin of objects with semisimple Cartan subalgebra actions is a tensor subcategory. We show that every simple gl(1|1)ˆ-module in KL_k has a projective cover in O_k^fin, and we determine all fusion rules involving simple and projective objects in O_k^fin. Then using Knizhnik-Zamolodchikov equations, we prove that KL_k and O_k^fin are rigid. As an application of the tensor supercategory structure on O_k^fin, we study certain module categories for the affine Lie superalgebra sl(2|1)ˆ at levels 1 and −1/2. In particular, we obtain a tensor category of sl(2|1)ˆ-modules at level −1/2 that includes relaxed highest-weight modules and their images under spectral flow.

In this paper, we introduce multiscale persistent functions for biomolecular structure characterization. The essential idea is to combine our multiscale rigidity functions with persistent homology analysis, so as to construct a series of multiscale persistent functions, particularly multiscale persistent entropies, for structure characterization. To clarify the fundamental idea of our method, the multiscale persistent entropy model is discussed in great detail. Mathematically, unlike the previous persistent entropy or topological entropy, a special resolution parameter is incorporated into our model. Various scales can be achieved by tuning its value. Physically, our multiscale persistent entropy can be used in conformation entropy evaluation. More specifically, it is found that our method incorporates in it a natural classification scheme. This is achieved through a density filtration of a multiscale rigidity function built from bond and/or dihedral angle distributions. To further validate our model, a systematical comparison with the traditional entropy evaluation model is done. It is found that our model is able to preserve the intrinsic topological features of biomolecular data much better than traditional approaches, particularly for resolutions in the mediate range. Moreover, our method can be successfully used in protein classification. For a test database with around nine hundred proteins, a clear separation between all-alpha and all-beta proteins can be achieved, using only the dihedral and pseudo-bond angle information. Finally, a special protein structure index (PSI) is proposed, for the first time, to describe the "regularity" of protein structures. Essentially, PSI can be used to describe the "regularity" information in any systems.

We prove that any “finite-type” component of a stability space of a triangulated category is contractible. The motivating example of such a component is the stability space of the Calabi–Yau–N category D(Gamma_N Q) associated to an ADE Dynkin quiver. In addition to showing that this is contractible we prove that the braid group Br(Q) acts freely upon it by spherical twists, in particular that the spherical twist group Br(Gamma_N Q) is isomorphic to Br(Q). This generalises the result of Brav–Thomas for the N=2 case. Other classes of triangulated categories with finite-type components in their stability spaces include locally finite triangulated categories with finite-rank Grothendieck group and discrete derived categories of finite global dimension.

No abstract uploaded!