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.
Method clusters SNPs to improve detection of disease-associated variants.
A simple algorithm for GWAS estimating SNP effects.
Genomic predictors explain 40% of human height variance.
SAERMA combines deep learning and rule mining to identify SNP interactions.
Kernel and Multiple Kernel Canonical Correlation Analysis (CCA) are employed to classify schizophrenic and healthy patients based on their SNPs, DNA Methylation and fMRI data. Kernel and Multiple Kernel CCA are popular methods for finding nonlinear correlations between high-dimensional datasets. Data was gathered from …
Study largest maize SNP dataset for heterosis traits prediction.
Genome-wide association studies have proven to be essential for understanding the genetic basis of disease. However, many complex traits---personality traits, facial features, disease subtyping---are inherently high-dimensional, impeding simple approaches to association mapping. We developed a nonparametric Bayesian re…
SNP extends Neural Processes to handle temporal dependencies in sequences.
A genome-wide association study (GWAS) correlates marker variation with trait variation in a sample of individuals. Each study subject is genotyped at a multitude of SNPs (single nucleotide polymorphisms) spanning the genome. Here we assume that subjects are unrelated and collected at random and that trait values are n…
This paper presents a method for efficient density estimation in nonlinear systems.
Genome-wide association studies (GWAS) offer new opportunities to identify genetic risk factors for Alzheimer's disease (AD). Recently, collaborative efforts across different institutions emerged that enhance the power of many existing techniques on individual institution data. However, a major barrier to collaborative…
The perennial problem of "how many clusters?" remains an issue of substantial interest in data mining and machine learning communities, and becomes particularly salient in large data sets such as populational genomic data where the number of clusters needs to be relatively large and open-ended. This problem gets furthe…
Genome-wide association studies (GWAS) have achieved great success in the genetic study of Alzheimer's disease (AD). Collaborative imaging genetics studies across different research institutions show the effectiveness of detecting genetic risk factors. However, the high dimensionality of GWAS data poses significant cha…
A new model identifies genetic risk factors using gene-level priors.
Discovers discriminative patterns in two-class datasets.
Kernel method detects higher order interactions in multi-view data for schizophrenia.
Study on solvable Lie groups with specific Weyl connections.
New attention mechanism improves meta-transfer learning in dynamic tasks.
In genome-wide interaction studies, to detect gene-gene interactions, most methods are divided into two folds: single nucleotide polymorphisms (SNP) based and gene-based methods. Basically, the methods based on the gene are more effective than the methods based on a single SNP. Recent years, while the kernel canonical …
We investigate the choice of tuning parameters for a Bayesian multi-level group lasso model developed for the joint analysis of neuroimaging and genetic data. The regression model we consider relates multivariate phenotypes consisting of brain summary measures (volumetric and cortical thickness values) to single nucleo…
Deep learning detects genetic interactions in type 2 diabetes.
Paper proposes BSP to find stable bimodules of cross-correlated features.
From a fresh data science perspective, this thesis discusses the prediction of coronary artery disease based on genetic variations at the DNA base pair level, called Single-Nucleotide Polymorphisms (SNPs), collected from the Ontario Heart Genomics Study (OHGS). First, the thesis explains two commonly used supervised le…
Motivation: Recent advances in technology for brain imaging and high-throughput genotyping have motivated studies examining the influence of genetic variation on brain structure. Wang et al. (Bioinformatics, 2012) have developed an approach for the analysis of imaging genomic studies using penalized multi-task regressi…
New method analyzes complex multivariate pathways in high-dimensional data.
Following the publication of an attack on genome-wide association studies (GWAS) data proposed by Homer et al., considerable attention has been given to developing methods for releasing GWAS data in a privacy-preserving way. Here, we develop an end-to-end differentially private method for solving regression problems wi…
Variable selection in high dimensional space has challenged many contemporary statistical problems from many frontiers of scientific disciplines. Recent technology advance has made it possible to collect a huge amount of covariate information such as microarray, proteomic and SNP data via bioimaging technology while ob…
We have developed a strategy for the analysis of newly available binary data to improve outcome predictions based on existing data (binary or non-binary). Our strategy involves two modeling approaches for the newly available data, one combining binary covariate selection via LASSO with logistic regression and one based…
A new method for joint eQTL mapping and gene network estimation.
Imaging genetic research has essentially focused on discovering unique and co-association effects, but typically ignoring to identify outliers or atypical objects in genetic as well as non-genetics variables. Identifying significant outliers is an essential and challenging issue for imaging genetics and multiple source…
Method distinguishes genetic correlations from causation in GWAS.
A multilevel model combines genetic and imaging data for AD diagnosis.
ASCEND discovers causal relationships in multi-omics data by leveraging known hierarchical structure.
Paper proposes inference method for high-dimensional censored quantile regression.
As an increasing number of genome-wide association studies reveal the limitations of attempting to explain phenotypic heritability by single genetic loci, there is growing interest for associating complex phenotypes with sets of genetic loci. While several methods for multi-locus mapping have been proposed, it is often…
Associating genetic markers with a multidimensional phenotype is an important yet challenging problem. In this work, we establish the equivalence between two popular methods: kernel-machine regression (KMR), and kernel distance covariance (KDC). KMR is a semiparametric regression frameworks that models the covariate ef…
Convex clustering can only learn convex clusters, with significant gaps between clusters.
Proposes a method to predict cluster number and cluster representatives using cluster stability analysis.
Paper compares clusterability measures for data mining.
Proposes a new clustering method based on expectiles for non-spherical clusters.
CCMM efficiently solves large-scale convex clustering problems.
This paper reviews weighted clustering ensemble methods.
Discussing issues in robust clustering, especially with Gaussian models.
New indices for determining cluster compactness and separability.
Mode clustering is a nonparametric method for clustering that defines clusters using the basins of attraction of a density estimator's modes. We provide several enhancements to mode clustering: (i) a soft variant of cluster assignment, (ii) a measure of connectivity between clusters, (iii) a technique for choosing the …
In this paper, a similarity-driven cluster merging method is proposed for unsuper-vised fuzzy clustering. The cluster merging method is used to resolve the problem of cluster validation. Starting with an overspecified number of clusters in the data, pairs of similar clusters are merged based on the proposed similarity-…
This paper introduces a persistence metric to compare clustering solutions with different numbers of clusters.
In many practical applications of clustering, the objects to be clustered evolve over time, and a clustering result is desired at each time step. In such applications, evolutionary clustering typically outperforms traditional static clustering by producing clustering results that reflect long-term trends while being ro…