Persistent homology (PH) encodes global information, such as cycles, and is thus increasingly integrated into graph neural networks (GNNs). PH methods in GNNs typically traverse an increasing sequence of subgraphs. In this work, we first expose limitations of this inclusion procedure. To remedy these shortcomings, we analyze contractions as a principled topological operation, in particular, for graph representation learning. We study the persistence of contraction sequences, which we call Contraction Homology (CH). We establish that forward PH and CH differ in expressivity. We then introduce Hourglass Persistence, a class of topological descriptors that interleave a sequence of inclusions and contractions to boost expressivity, learnability, and stability. We also study related families parametrized by two paradigms. We also discuss how our framework extends to simplicial and cellular networks. We further design efficient algorithms that are pluggable into end-to-end differentiable GNN pipelines, enabling consistent empirical improvements over many PH methods across standard real-world graph datasets. Code is available at \href{https://github.com/Aalto-QuML/Hourglass}{this https URL}.

High-dimensional variable selection, particularly in genomics, requires error-controlling procedures that scale to millions of predictors. The Terminating-Random Experiments (T-Rex) selector achieves false discovery rate (FDR) control by aggregating results of early terminated random experiments, each combining original predictors with i.i.d. synthetic null variables (dummies). At biobank scales, however, explicit dummy augmentation requires terabytes of memory. We demonstrate that this bottleneck is not fundamental. Formalizing the information flow of forward selection through a filtration, we show that compatible selectors interact with unselected dummies solely through projections onto an adaptively evolving low-dimensional subspace. For rotationally invariant dummy distributions, we derive an adaptive stick-breaking construction sampling these projections from their exact conditional distribution given the selection history, thereby eliminating dummy matrix materialization. We prove a pathwise universality theorem: under mild delocalization conditions, selection paths driven by generic standardized i.i.d. dummies converge to the same Gaussian limit. We instantiate the theory through Virtual Dummy LARS (VD-LARS), reducing memory and runtime by several orders of magnitude while preserving the exact selection law and FDR guarantees of the T-Rex selector. Experiments on realistic genome-wide association study data confirm that VD-T-Rex controls FDR and achieves power at scales where all competing methods either fail or time out.

Single-cell RNA-seq data analysis typically requires representations that capture heterogeneous local structure across multiple scales while remaining stable and interpretable. In this work, we propose a hierarchical sheaf spectral embedding (HSSE) framework that constructs informative cell-level features based on persistent sheaf Laplacian analysis. Starting from scale-dependent low-dimensional embeddings, we define cell-centered local neighborhoods at multiple resolutions. For each local neighborhood, we construct a data-driven cellular sheaf that encodes local relationships among cells. We then compute persistent sheaf Laplacians over sampled filtration intervals and extract spectral statistics that summarize the evolution of local relational structure across scales. These spectral descriptors are aggregated into a unified feature vector for each cell and can be directly used in downstream learning tasks without additional model training. We evaluate HSSE on twelve benchmark single-cell RNA-seq datasets covering diverse biological systems and data scales. Under a consistent classification protocol, HSSE achieves competitive or improved performance compared with existing multiscale and classical embedding-based methods across multiple evaluation metrics. The results demonstrate that sheaf spectral representations provide a robust and interpretable approach for single-cell RNA-seq data representation learning.

To address this shortcoming of weak convergence, D. Aldous [

Augmenting these graph models with topological features via persistent homology (PH) has gained prominence, but identifying the class of attributed graphs that PH can recognize remains open. We introduce a novel concept of color-separating sets to provide a complete resolution to this important problem.

This state of the art was recently critiqued by O'Bray et al.

SSL based on persistent homology (PH), a mathematical tool for modeling topological features of data that persist across multiple scales.