A locally-built, LLM-digested index of recent arXiv papers in quant finance, geometry/topology, and statistical ML — keyword search served straight from SQLite on this machine.
Mutation graph of support τ-tilting modules over skew-gentle algebras is connected.
VEGN uses graph neural networks to predict disease-causing mutations from genetic variants.
The paper studies alternating links in thickened surfaces using flow lattices and disc mutations.
It is conjectured that the Khovanov homology of a knot is invariant under mutation. In this paper, we review the spanning tree complex for Khovanov homology, and reformulate this conjecture using a matroid obtained from the Tait graph (checkerboard graph) G of a knot diagram K. The spanning trees of G provide a filtrat…
The d-invariant of an integral, positive definite lattice L records the minimal norm of a characteristic covector in each equivalence class mod 2L. We prove that the 2-isomorphism type of a connected graph is determined by the d-invariant of its lattice of integral cuts (or flows). As an application, we prove that a re…
The study explores properties and mutations in oriented matroids, proving new results on Euclidean and non-Euclidean structures.
Geometrically, Legendrian surfaces related by surgery have related skein-valued cluster spaces.
We generalise surface cluster algebras to the case of infinite surfaces where the surface contains finitely many accumulation points of boundary marked points. To connect different triangulations of an infinite surface, we consider infinite mutation sequences. We show transitivity of infinite mutation sequences on tria…
Proteins are commonly used by biochemical industry for numerous processes. Refining these proteins' properties via mutations causes stability effects as well. Accurate computational method to predict how mutations affect protein stability are necessary to facilitate efficient protein design. However, accuracy of predic…
The present paper is an introduction to a combinatorial theory arising as a natural generalisation of classical and virtual knot theory. There is a way to encode links by a class of `realisable' graphs. When passing to generic graphs with the same equivalence relations we get `graph-links'. On one hand graph-links gene…
Genus 2 mutation is the process of cutting a 3-manifold along an embedded closed genus 2 surface, twisting by the hyper-elliptic involution, and gluing back. This paper compares genus 2 mutation with the better-known Conway mutation in the context of knots in the 3-sphere. Despite the fact that any Conway mutation can …
Modeling correlated mutations in cancer for personalized treatment.
New RL approach builds short ancestral recombination graphs.
Improved genetic programming by optimizing mutation operators for continuous program search.
We define a link homology theory that is readily seen to be both isomorphic to reduced odd Khovanov homology and fully determined by data impervious to Conway mutation. This gives an elementary proof that odd Khovanov homology is mutation invariant, and therefore that mod 2 Khovanov homology is mutation invariant. We a…
We give a new, elementary proof that Khovanov homology with --coefficients is invariant under Conway mutation. This proof also gives a strategy to prove Baldwin and Levine's conjecture that --graded knot Floer homology is mutation--invariant. Using the Clifford module structure on $\widetilde…
Mathematician summarizes protein geometry and mutation effects.
We study the effect of mutation on link concordance and 3-manifolds. We show that the set of links concordant to sublinks of homology boundary links is not closed under positive mutation. We show that mutation does not preserve homology cobordism classes of 3-manifolds. A significant consequence is that there exist 3-m…
We prove the existence of Lagrangian fillings for -type Legendrian links.
We describe in this talk three methods of constructing different links with the same Jones type invariant. All three can be thought as generalizations of mutation. The first combines the satellite construction with mutation. The second uses the notion of rotant, taken from the graph theory, the third, invented by Jones…
Khovanov homology invariant under Conway mutation.
Paper tackles gene mutation prediction for HCC using multi-instance multi-label learning.
We introduce a property of mutation loops, called the sign stability, with a focus on an asymptotic behavior of the iteration of the tropical -transformation. A sign-stable mutation loop has a numerical invariant which we call the cluster stretch factor, in analogy with that of a pseudo-Anosov mapping clas…
We show that instanton knot homology is mutation-invariant, as a consequence of earlier work of the third author.
We introduce an exploratory study on Mutation Validation (MV), a model validation method using mutated training labels for supervised learning. MV mutates training data labels, retrains the model against the mutated data, then uses the metamorphic relation that captures the consequent training performance changes to as…
We construct finite volume hyperbolic manifolds with large symmetry groups. The construction makes use of the presentations of finite Coxeter groups provided by Barot and Marsh and involves mutations of quivers and diagrams defined in the theory of cluster algebras. We generalize our construction by assigning to every …
We prove that generalized mutation preserves several geometric invariants such as the volume and Goncharov invariant of Q-rank 1 locally symmetric spaces.
The interior polynomial is an invariant of (signed) bipartite graphs, and the interior polynomial of a plane bipartite graph is equal to a part of the HOMFLY polynomial of a naturally associated link. The HOMFLY polynomial is a famous link invariant with many known properties. For example, the HOMFLY polynom…
EDAs with matrix transpose improve Bayesian structure learning performance.
Analysis of somatic mutation profiles from cancer patients is essential in the development of cancer research. However, the low frequency of most mutations and the varying rates of mutations across patients makes the data extremely challenging to statistically analyze as well as difficult to use in classification probl…
We show that the reduced sl(n) homology defined by Khovanov and Rozansky is invariant under component-preserving positive mutation when n is odd.
We prove that Khovanov homology and Lee homology with coefficients in are invariant under component-preserving link mutations.
We give a short topological proof for Rubermans Theorem about mutation and volume, using the Maskit combination theorem and the homology of the linear group.
Using computer calculations and working with representatives of pretzel tangles we established general adequacy criteria for different classes of knots and links. Based on adequate graphs obtained from all Kauffman states of an alternating link we defined a new numerical invariant: adequacy number, and computed adequac…
In this paper, we explicitly construct large classes of incommensurable hyperbolic knot complements with the same volume and the same initial (complex) length spectrum. Furthermore, we show that these knot complements are the only knot complements in their respective commensurabiltiy classes by analyzing their cusp sha…
For the alternating knots or links, mutations do not change the arc index. In the case of nonalternating knots, some semi-alternating knots or links have this property. We mainly focus on the problem of mutation invariance of the arc index for nonalternating knots which are not semi-alternating. In this paper, we found…
We describe and investigate a connection between the topology of isolated singularities of plane curves and the mutation equivalence, in the sense of cluster algebra theory, of the quivers associated with their morsifications.
Motivation: HIV is difficult to treat because its virus mutates at a high rate and mutated viruses easily develop resistance to existing drugs. If the relationships between mutations and drug resistances can be determined from historical data, patients can be provided personalized treatment according to their own mutat…
Given a hyperbolic knot, we prove that the Reidemeister torsion of any lift of the holonomy to SL(2,C) is invariant under mutation along a Conway sphere.
Mutation is an operation on 3-manifolds containing an embedded surface of genus 2. It is defined by cutting along the surface and regluing using the `hyperelliptic' involution, and is known to preserve many 3-manifold invariants. I show that mutation of a homology 3-sphere preserves its (instanton) Floer homology, and …
MutaGAN predicts mutations of evolving protein populations using GANs.
Determining the primary site of origin for metastatic tumors is one of the open problems in cancer care because the efficacy of treatment often depends on the cancer tissue of origin. Classification methods that can leverage tumor genomic data and predict the site of origin are therefore of great value. Because tumor D…
PANDA predicts protein binding affinity changes from sequences, outperforming existing methods.
New flows represent Thurston norm ball faces, differing by veering mutations.
This paper establishes that sutured annular Khovanov homology is not invariant for braid closures under axis-preserving mutations. This follows from an explicit relationship between sutured annular Khovanov homology and the classical Burau representation for braid closures.
In this paper, we prove that the Reidemeister torsion twisted by the adjoint representation, which is considered as a 1-form, on the SU(2)-character variety of a knot exterior is invariant under mutation along a Conway sphere.
For any quiver mutation sequence, we define a pair of matrices that describe a fixed point equation of a cluster transformation determined from the mutation sequence. We give an explicit relationship between this pair of matrices and the Jacobian matrix of the cluster transformation. Furthermore, we show that this rela…
We construct a family of hyperbolic link complements by gluing tangles along totally geodesic four-punctured spheres, then investigate the commensurability relation among its members. Those with different volume are incommensurable, distinguished by their scissors congruence classes. Mutation produces arbitrarily large…