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.
New method expands seed genes to functionally related clusters.
Paper tackles graph matching with partially correct seeds, improving performance guarantees.
The paper shows how shared random seeds can reduce variance in machine learning evaluations.
New method stabilizes machine learning predictions across random seeds.
Fairness audits fail under missing protected labels, especially at zero access.
Study finds many Lagrangian fillings for certain Legendrian links.
New method fills cluster seeds with exact Lagrangian structures.
Many methods for automated software test generation, including some that explicitly use machine learning (and some that use ML more broadly conceived) derive new tests from existing tests (often referred to as seeds). Often, the seed tests from which new tests are derived are manually constructed, or at least simpler t…
Bayesian optimization is a powerful tool for expensive stochastic black-box optimization problems such as simulation-based optimization or machine learning hyperparameter tuning. Many stochastic objective functions implicitly require a random number seed as input. By explicitly reusing a seed a user can exploit common …
A new method uses gene interaction networks to predict gene functions.
In this paper, we focus on quantifying model stability as a function of random seed by investigating the effects of the induced randomness on model performance and the robustness of the model in general. We specifically perform a controlled study on the effect of random seeds on the behaviour of attention, gradient-bas…
New method finds 198,846 toric-colorable seeds of Picard number 5.
Optimized biopharmaceutical seed train design reduces variability and saves time.
Study on how intraclass variability affects Temporal Ensembling accuracy.
PNN-smoothing improves -means clustering by merging subsets' clusterings.
Given two graphs, the graph matching problem is to align the two vertex sets so as to minimize the number of adjacency disagreements between the two graphs. The seeded graph matching problem is the graph matching problem when we are first given a partial alignment that we are tasked with completing. In this paper, we m…
Data-aware methods for dimensionality reduction and matrix decomposition aim to find low-dimensional structure in a collection of data. Classical approaches discover such structure by learning a basis that can efficiently express the collection. Recently, "self expression", the idea of using a small subset of data vect…
Community detection is, at its core, an attempt to attach an interpretable function to an otherwise indecipherable form. The importance of labeling communities has obvious implications for identifying clusters in social networks, but it has a number of equally relevant applications in product recommendations, biologica…
VEGN uses graph neural networks to predict disease-causing mutations from genetic variants.
Developed mlf-core for deterministic machine learning.
Bioinformatics tools have been developed to interpret gene expression data at the gene set level, and these gene set based analyses improve the biologists' capability to discover functional relevance of their experiment design. While elucidating gene set individually, inter gene sets association is rarely taken into co…
We present a novel approximate graph matching algorithm that incorporates seeded data into the graph matching paradigm. Our Joint Optimization of Fidelity and Commensurability (JOFC) algorithm embeds two graphs into a common Euclidean space where the matching inference task can be performed. Through real and simulated …
Efficiently selects seed nodes to maximize content influence in unknown social networks.
Identifying significant subsets of the genes, gene shaving is an essential and challenging issue for biomedical research for a huge number of genes and the complex nature of biological networks,. Since positive definite kernel based methods on genomic information can improve the prediction of diseases, in this paper we…
Eradicating hunger and malnutrition is a key development goal of the 21st century. We address the problem of optimally identifying seed varieties to reliably increase crop yield within a risk-sensitive decision-making framework. Specifically, we introduce a novel hierarchical machine learning mechanism for predicting c…
A new method for joint eQTL mapping and gene network estimation.
New method handles correlated genes for better genomic prediction.
Popular online enrichment analysis tools from the field of molecular systems biology provide users with the ability to submit their experimental results as gene sets for individual analysis. Such queries are kept private, and have never before been considered as a resource for integrative analysis. By harnessing gene s…
We prove that for a generic -dimensional integrable rolling distribution of contact elements (excluding developable seed and isotropic developable leaves) isometric correspondence of leaves of a general nature (independent of the shape of the seed) requires the Bäcklund transformation.
Paper proves uniqueness of a complex construction.
Elucidating the genetic basis of human diseases is a central goal of genetics and molecular biology. While traditional linkage analysis and modern high-throughput techniques often provide long lists of tens or hundreds of disease gene candidates, the identification of disease genes among the candidates remains time-con…
PPM improves graph matching for correlated Gaussian Wigner models with high probability.
We present a Bayesian hierarchical multi-view mixture model termed Symphony that simultaneously learns clusters of cells representing cell types and their underlying gene regulatory networks by integrating data from two views: single-cell gene expression data and paired epigenetic data, which is informative of gene-gen…
We present the extention and application of a new unsupervised statistical learning technique--the Partition Decoupling Method--to gene expression data. Because it has the ability to reveal non-linear and non-convex geometries present in the data, the PDM is an improvement over typical gene expression analysis algorith…
We present a parallelized bijective graph matching algorithm that leverages seeds and is designed to match very large graphs. Our algorithm combines spectral graph embedding with existing state-of-the-art seeded graph matching procedures. We justify our approach by proving that modestly correlated, large stochastic blo…
Discrete knot theory models use lattice-filtered graphs to detect merging knot components.
A novel method selects genes for high-dimensional gene expression data with class imbalance.
New method uses cluster shapes to improve track finding in particle collisions.
Disease-gene prediction (DGP) refers to the computational challenge of predicting associations between genes and diseases. Effective solutions to the DGP problem have the potential to accelerate the therapeutic development pipeline at early stages via efficient prioritization of candidate genes for various diseases. In…
The problem of multilabel classification when the labels are related through a hierarchical categorization scheme occurs in many application domains such as computational biology. For example, this problem arises naturally when trying to automatically assign gene function using a controlled vocabularies like Gene Ontol…
Identifying latent structure in large data matrices is essential for exploring biological processes. Here, we consider recovering gene co-expression networks from gene expression data, where each network encodes relationships between genes that are locally co-regulated by shared biological mechanisms. To do this, we de…
The method integrates survival constraints into NMF for identifying survival-associated gene clusters.
TOO optimizes stochastic epidemiological models by finding both parameter settings and random seeds.
New MCMC method tackles label-switching problem for clustering.
When searching for gene pathways leading to specific disease outcomes, additional information on gene characteristics is often available that may facilitate to differentiate genes related to the disease from irrelevant background when connections involving both types of genes are observed and their relationships to the…
OmniMatch algorithm perfectly matches graphs without edge correlation.
New methods detect continuous variation in single-cell data.
Microarray cancer gene expression data comprise of very high dimensions. Reducing the dimensions helps in improving the overall analysis and classification performance. We propose two hybrid techniques, Biogeography - based Optimization - Random Forests (BBO - RF) and BBO - SVM (Support Vector Machines) with gene ranki…