arXiv research

Model detects patterns in noisy binary data, explaining neuron activity in terms of cell assemblies.

Deep neural networks (DNNs) are known for extracting useful information from large amounts of data. However, the representations learned in DNNs are typically hard to interpret, especially in dense layers. One crucial issue of the classical DNN model such as multilayer perceptron (MLP) is that neurons in the same layer…

Designs a Cellular Automata rule for forming touching loop patterns.

Discontinuous Finite Element Methods (DFEM) have been widely used for solving $S_n$ radiation transport problems in participative and non-participative media. In the DFEM $S_n$ methodology, the transport equation is discretized into a set of algebraic equations that have to be solved for each spatial cell and angular d…

Given an integer b and a finitely presented group G we produce a compact symplectic six-manifold with c_1 = 0, b_2 > b, b_3 > b and fundamental group G. In the simply-connected case we can also arrange for b_3 = 0; in particular these examples are not diffeomorphic to Kähler manifolds with c_1 = 0. The construction beg…

For every strong coarse homology theory we construct a coarse assembly map as a natural transformation between coarse homology theories. We provide various conditions implying that this assembly map is an equivalence. These results generalize known results for the analytic coarse assembly map for K-homology to general …

Model predicts composite structures assembly quality with input uncertainty.

Survey on metrics and assembly maps in positive scalar curvature.

If a Lie algebra structures $\gG$ on a vector space is the sum of a family of mutually compatible Lie algebra structures $\gG_i$, we say that $\gG$ is \emph{simply assembled} from $\gG_s$'s. By repeating this procedure several times one gets a family of Lie algebras \emph{assembled} from $\gG_s$'s. The central result o…

We construct the geometric Baum-Connes assembly map for twisted Lie groupoids, that means for Lie groupoids together with a given groupoid equivariant $PU(H)-$principle bundle. The construction is based on the use of geometric deformation groupoids, these objects allow in particular to give a geometric construction of …

We study in this paper the maximal version of the coarse Baum-Connes assembly map for families of expanding graphs arising from residually finite groups. Unlike for the usual Roe algebra, we show that this assembly map is closely related to the (maximal) Baum-Connes assembly map for the group and is an isomorphism for …

Realistic evolutionary fitness landscapes are notoriously difficult to construct. A recent cutting-edge model of virus assembly consists of a dodecahedral capsid with $12$ corresponding packaging signals in three affinity bands. This whole genome/phenotype space consisting of $3^{12}$ genomes has been explored via comp…

Controlled $K$-theory is used to show that algebraic $K$-theory of virtually abelian groups is described by an assembly map defined using possibly-infinite hyperelementary subgroups. The Farrell-Jones summand (coming from infinite subgroups) is parameterized by the rational projective space of the group, and a reduced …

We exhibit the first examples of compact orientable hyperbolic manifolds that do not have any spin structure. We show that such manifolds exist in all dimensions $n \geq 4$. The core of the argument is the construction of a compact orientable hyperbolic $4$-manifold $M$ that contains a surface $S$ of genus $3$ with sel…

If a Lie algebra structure g on a vector space is the sum of a family of mutually compatible Lie algebra structures g_i's, we say that g is simply assembled from the g_i's. Repeating this procedure with a number of Lie algebras, themselves simply assembled from the g_i's, one obtains a Lie algebra assembled in two step…

We use assembly maps to study $\mathbf{TC}(\mathbb{A}[G];p)$, the topological cyclic homology at a prime $p$ of the group algebra of a discrete group $G$ with coefficients in a connective ring spectrum $\mathbb{A}$. For any finite group, we prove that the assembly map for the family of cyclic subgroups is an isomorphis…

A framework for generating 3D shapes by sequentially assembling primitives.

In this article, we introduce the notion of a functor on coarse spaces being coarsely excisive- a coarse analogue of the notion of a functor on topological spaces being excisive. Further, taking cones, a coarsely excisive functor yields a topologically excisive functor, and for coarse topological spaces there is an ass…

Defines and computes geometric pairings for discrete groups using Baum-Connes assembly map.

Model for assembly map of bordism-invariant functors.

We analyze linear independence of rank one tensors produced by tensor powers of randomly perturbed vectors. This enables efficient decomposition of sums of high-order tensors. Our analysis builds upon [BCMV14] but allows for a wider range of perturbation models, including discrete ones. We give an application to recove…

We construct a higher Whitehead torsion map, using algebraic K-theory of spaces, and show that it satisfies the usual properties of the classical Whitehead torsion. This is used to describe a "geometric assembly map" defined on stabilized structure spaces in purely homotopy theoretic terms.

In this paper, we propose a semi-supervised deep learning method for detecting the specific types of reads that impede the de novo genome assembly process. Instead of dealing directly with sequenced reads, we analyze their coverage graphs converted to 1D-signals. We noticed that specific signal patterns occur in each r…

Easy-to-assemble 3D model of Boy's surface.

In this paper we introduce a homotopy theoretic technique for proving that the $K$-theoretic assembly map is an equivalence. It is an extension of the methods used to prove split injectivity of the assembly and applies to any geometrically finite group. Our result is that there are two requirements which need to hold. …

Bayesian calibration for BCP self-assembly models using image data and measure transport.

Between the category of exact metric spaces with bounded geometry (about which much is known) and the larger category of arbitrary exact metric spaces (about which little is known) lies the intermediate category of asymptotically exact metric spaces. We show that the coarse Baum-Connes assembly map is naturally split s…

In this paper, the first of a series of two, we continue the study of higher index theory for expanders. We prove that if a sequence of graphs is an expander and the girth of the graphs tends to infinity, then the coarse Baum-Connes assembly map is injective, but not surjective, for the associated metric space $X$. Exp…

This paper provides a full controlled version of algebraic $K$-theory. This includes a rich array of assembly maps; the controlled assembly isomorphism theorem identifying the controlled group with homology; and the stability theorem describing the behavior of the inverse limit as the control parameter goes to 0. There…

We prove that the Farrell-Jones assembly map for connective algebraic K-theory is rationally injective, under mild homological finiteness conditions on the group and assuming that a weak version of the Leopoldt-Schneider conjecture holds for cyclotomic fields. This generalizes a result of Bökstedt, Hsiang, and Madsen, …

Finding the best neural network architecture requires significant time, resources, and human expertise. These challenges are partially addressed by neural architecture search (NAS) which is able to find the best convolutional layer or cell that is then used as a building block for the network. However, once a good buil…

Kernel testing compares cell states in single-cell data.

Study uses multi-agent reinforcement learning to control self-assembly with high-resolution external control.

Analyzes semi-characteristics on specific manifolds, proving a vanishing theorem.

Cell detection and cell type classification from biomedical images play an important role for high-throughput imaging and various clinical application. While classification of single cell sample can be performed with standard computer vision and machine learning methods, analysis of multi-label samples (region containi…

Forest Fire Clustering discovers cell types from single-cell data.

Let M be a hyperkähler manifold. The S^2-family of complex structures compatible with the hyperkähler metric can be assembled into a single complex structure on Z=MxS^2; the resulting complex manifold is known as the twistor space of M. We describe the analogous construction for generalized complex structures in the se…

Proposes CCCVAE for better single-cell clustering with cell-cell communication.

Matching cells over time has long been the most difficult step in cell tracking. In this paper, we approach this problem by recasting it as a classification problem. We construct a feature set for each cell, and compute a feature difference vector between a cell in the current frame and a cell in a previous frame. Then…

Improved GPLVM model for single-cell RNA-seq data.

The study identifies all possible vector field structures on specific 2D shapes.

CHANI learns classification tasks with local transformations inspired by biology.

New model identifies cell-specific genes for cancer prognosis.

Defines Whitehead torsion for topological spaces via K-theory.

MarkerMap selects key genes for cell type analysis in single-cell RNA-seq.

Proposes CXNs for neural network computations on cell complexes.

In recent years, the advances in single-cell RNA-seq techniques have enabled us to perform large-scale transcriptomic profiling at single-cell resolution in a high-throughput manner. Unsupervised learning such as data clustering has become the central component to identify and characterize novel cell types and gene exp…

A geometric model for twisted $K$-homology is introduced. It is modeled after the Mathai-Melrose-Singer fractional analytic index theorem in the same way as the Baum-Douglas model of $K$-homology was modeled after the Atiyah-Singer index theorem. A natural transformation from twisted geometric $K$-homology to the new g…