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.
Study identifies cancer genes through graph anomaly analysis of protein interactions.
Modeling correlated mutations in cancer for personalized treatment.
New model improves cancer screening prediction accuracy.
Paper proposes inference method for high-dimensional censored quantile regression.
Proposes a multi-resolution model for prostate cancer classification using mpMRI.
Intratumor heterogeneity is often manifested by vascular compartments with distinct pharmacokinetics that cannot be resolved directly by in vivo dynamic imaging. We developed tissue-specific compartment modeling (TSCM), an unsupervised computational method of deconvolving dynamic imaging series from heterogeneous tumor…
Paper presents a machine learning method to predict cancer sub-clones.
Unified framework improves gene prioritization in disease studies.
Federated survival analysis outperforms local and centralized training, with RSF offering the best balance of discrimination, calibration, and robustness.
Bayesian framework for analyzing heterogeneous covariance data with a novel MoE-Wishart model.
We consider joint estimation of multiple graphical models arising from heterogeneous and high-dimensional observations. Unlike most previous approaches which assume that the cluster structure is given in advance, an appealing feature of our method is to learn cluster structure while estimating heterogeneous graphical m…
BIDIFAC+ factorizes linked matrices for cancer studies.
Motivation: Driver (epi)genomic alterations underlie the positive selection of cancer subpopulations, which promotes drug resistance and relapse. Even though substantial heterogeneity is witnessed in most cancer types, mutation accumulation patterns can be regularly found and can be exploited to reconstruct predictive …
Study improves machine learning for estimating survival treatment effects.
Develops HCQRF for estimating heterogeneous treatment effects with censored data.
Precision medicine aims for personalized prognosis and therapeutics by utilizing recent genome-scale high-throughput profiling techniques, including next-generation sequencing (NGS). However, translating NGS data faces several challenges. First, NGS count data are often overdispersed, requiring appropriate modeling. Se…
CN-SBM clusters cancer samples and regions based on copy number variants.
Omics-GAN uses GANs to generate synthetic multi-omics data for improved disease prediction.
PDX studies help personalize cancer treatment.
This work is motivated by multimodality breast cancer imaging data, which is quite challenging in that the signals of discrete tumor-associated microvesicles (TMVs) are randomly distributed with heterogeneous patterns. This imposes a significant challenge for conventional imaging regression and dimension reduction mode…
Bayesian neural networks improve cancer dynamics prediction.
Unlike common cancers, such as those of the prostate and breast, tumor grading in rare cancers is difficult and largely undefined because of small sample sizes, the sheer volume of time needed to undertake on such a task, and the inherent difficulty of extracting human-observed patterns. One of the most challenging exa…
Proposes a two-stage method for estimating heterogeneous treatment effects using gradient boosting trees.
Integrative analysis of disparate data blocks measured on a common set of experimental subjects is a major challenge in modern data analysis. This data structure naturally motivates the simultaneous exploration of the joint and individual variation within each data block resulting in new insights. For instance, there i…
Due to the complexity of cancer, clustering algorithms have been used to disentangle the observed heterogeneity and identify cancer subtypes that can be treated specifically. While kernel based clustering approaches allow the use of more than one input matrix, which is an important factor when considering a multidimens…
Cancer is one of the leading cause of death, worldwide. Many believe that genomic data will enable us to better predict the survival time of these patients, which will lead to better, more personalized treatment options and patient care. As standard survival prediction models have a hard time coping with the high-dimen…
Efficient and precise classification of histological cell nuclei is of utmost importance due to its potential applications in the field of medical image analysis. It would facilitate the medical practitioners to better understand and explore various factors for cancer treatment. The classification of histological cell …
We propose a novel "tree-averaging" model that utilizes the ensemble of classification and regression trees (CART). Each constituent tree is estimated with a subset of similar data. We treat this grouping of subsets as Bayesian ensemble trees (BET) and model them as an infinite mixture Dirichlet process. We show that B…
Paper develops a method to predict cancer patient survival using molecular profiles.
A Bayesian Boolean Matrix Factorization for cancer genomics
Data integration methods that analyze multiple sources of data simultaneously can often provide more holistic insights than can separate inquiries of each data source. Motivated by the advantages of data integration in the era of "big data", we investigate feature selection for high-dimensional multi-view data with mix…
TransST improves spatial transcriptomics data analysis by identifying cell clusters and biomarkers.
Meta-analysis improves interpretation and efficiency across similar but non-identical datasets.
Tissue microarray (TMA) images have been used increasingly often in cancer studies and the validation of biomarkers. TACOMA---a cutting-edge automatic scoring algorithm for TMA images---is comparable to pathologists in terms of accuracy and repeatability. Here we consider how this algorithm may be further improved. Ins…
Febrile neutropenia (FN) has been associated with high mortality, especially among adults with cancer. Understanding the patient and provider level heterogeneity in FN hospital admissions has potential to inform personalized interventions focused on increasing survival of individuals with FN. We leverage machine learni…
The task of clustering a set of objects based on multiple sources of data arises in several modern applications. We propose an integrative statistical model that permits a separate clustering of the objects for each data source. These separate clusterings adhere loosely to an overall consensus clustering, and hence the…
CNN-based prostate cancer grading improves accuracy and efficiency.
Unified MTL framework for heterogeneous data integrates shared and task-specific encoders.
We introduce a tensor-based clustering method to extract sparse, low-dimensional structure from high-dimensional, multi-indexed datasets. This framework is designed to enable detection of clusters of data in the presence of structural requirements which we encode as algebraic constraints in a linear program. Our cluste…
CausalMix generates synthetic data with causal controls for mixed-type tables.
IA-BMA adapts model weights to inputs for better predictions.
A new method estimates treatment effects across multiple studies considering differences.
We introduce a general framework for estimation of inverse covariance, or precision, matrices from heterogeneous populations. The proposed framework uses a Laplacian shrinkage penalty to encourage similarity among estimates from disparate, but related, subpopulations, while allowing for differences among matrices. We p…
Boolean tensor decomposition approximates data of multi-way binary relationships as product of interpretable low-rank binary factors, following the rules of Boolean algebra. Here, we present its first probabilistic treatment. We facilitate scalable sampling-based posterior inference by exploitation of the combinatorial…
New methods for estimating treatment effects with missing data.
New method estimates treatment effects over time for survival data, improving accuracy and smoothness.
The method integrates survival constraints into NMF for identifying survival-associated gene clusters.
Domain adaptation leverages the knowledge in one domain - the source domain - to improve learning efficiency in another domain - the target domain. Existing heterogeneous domain adaptation research is relatively well-progressed, but only in situations where the target domain contains at least a few labeled instances. I…