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We develop statistically based methods to detect single nucleotide DNA mutations in next generation sequencing data. Sequencing generates counts of the number of times each base was observed at hundreds of thousands to billions of genome…

Applications · Statistics 2012-10-01 Omkar Muralidharan , Georges Natsoulis , John Bell , Hanlee Ji , Nancy R. Zhang

In this paper we propose a computationally efficient multiple hypothesis testing procedure for persistent homology. The computational efficiency of our procedure is based on the observation that one can empirically simulate a null…

Computational Geometry · Computer Science 2022-08-29 Mikael Vejdemo-Johansson , Sayan Mukherjee

Simultaneously performing variable selection and inference in high-dimensional models is an open challenge in statistics and machine learning. The increasing availability of vast amounts of variables requires the adoption of specific…

Methodology · Statistics 2025-10-02 Marco Molinari , Magne Thoresen

Overconfidence in deep learning models poses a significant risk in high-stakes medical imaging tasks, particularly in multi-label classification of chest X-rays, where multiple co-occurring pathologies must be detected simultaneously. This…

Image and Video Processing · Electrical Eng. & Systems 2025-09-15 Yehudit Aperstein , Amit Tzahar , Alon Gottlib , Tal Verber , Ravit Shagan Damti , Alexander Apartsin

Large-scale Hierarchical Classification (HC) involves datasets consisting of thousands of classes and millions of training instances with high-dimensional features posing several big data challenges. Feature selection that aims to select…

Machine Learning · Computer Science 2017-06-07 Azad Naik , Huzefa Rangwala

In online multiple testing, the hypotheses arrive one by one, and at each time we must immediately reject or accept the current hypothesis solely based on the data and hypotheses observed so far. Many online procedures have been proposed,…

Methodology · Statistics 2026-02-27 Lasse Fischer , Ziyu Xu , Aaditya Ramdas

Revealing relationships between genes and disease phenotypes is a critical problem in biomedical studies. This problem has been challenged by the heterogeneity of diseases. Patients of a perceived same disease may form multiple subgroups,…

Methodology · Statistics 2022-11-30 Yifan Sun , Ziye Luo , Xinyan Fan

Using administrative patient-care data such as Electronic Health Records (EHR) and medical/ pharmaceutical claims for population-based scientific research has become increasingly common. With vast sample sizes leading to very small standard…

Methodology · Statistics 2023-08-21 Ritoban Kundu , Xu Shi , Jean Morrison , Jessica Barrett , Bhramar Mukherjee

In implicit collaborative filtering, hard negative mining techniques are developed to accelerate and enhance the recommendation model learning. However, the inadvertent selection of false negatives remains a major concern in hard negative…

Information Retrieval · Computer Science 2024-03-29 Kexin Shi , Jing Zhang , Linjiajie Fang , Wenjia Wang , Bingyi Jing

In modern high-throughput data analysis, researchers perform a large number of statistical tests, expecting to find perhaps a small fraction of significant effects against a predominantly null background. Higher Criticism (HC) was…

Statistics Theory · Mathematics 2015-04-13 David Donoho , Jiashun Jin

Fault detection is crucial for ensuring the safety and reliability of modern industrial systems. However, a significant scientific challenge is the lack of rigorous risk control and reliable uncertainty quantification in existing diagnostic…

Artificial Intelligence · Computer Science 2025-08-05 Mingchen Mei , Yi Li , YiYao Qian , Zijun Jia

For multiple testing based on p-values with c\`{a}dl\`{a}g distribution functions, we propose an FDR procedure "BH+" with proven conservativeness. BH+ is at least as powerful as the BH procedure when they are applied to super-uniform…

Methodology · Statistics 2020-03-09 Xiongzhi Chen

Datasets can be biased due to societal inequities, human biases, under-representation of minorities, etc. Our goal is to certify that models produced by a learning algorithm are pointwise-robust to potential dataset biases. This is a…

Machine Learning · Computer Science 2021-10-12 Anna P. Meyer , Aws Albarghouthi , Loris D'Antoni

We consider the problem of comparing a reference distribution with several other distributions. Given a sample from both the reference and the comparison groups, we aim to identify the comparison groups whose distributions differ from that…

Methodology · Statistics 2025-11-26 Yonghoon Lee , Edgar Dobriban , Eric Tchetgen Tchetgen

Biological research often involves testing a growing number of null hypotheses as new data is accumulated over time. We study the problem of online control of the familywise error rate (FWER), that is testing an apriori unbounded sequence…

Methodology · Statistics 2020-03-10 Jinjin Tian , Aaditya Ramdas

We develop a flexible feature selection framework based on deep neural networks that approximately controls the false discovery rate (FDR), a measure of Type-I error. The method applies to architectures whose first layer is fully connected.…

Machine Learning · Statistics 2026-02-10 Kazuma Sawaya

E-values have gained attention as potential alternatives to p-values as measures of uncertainty, significance and evidence. In brief, e-values are realized by random variables with expectation at most one under the null; examples include…

Statistics Theory · Mathematics 2021-12-16 Ruodu Wang , Aaditya Ramdas

Federated learning has attracted significant attention as a privacy-preserving framework for training personalised models on multi-source heterogeneous data. However, most existing approaches are unable to handle scenarios where subgroup…

Methodology · Statistics 2025-10-14 Changxin Yang , Zhongyi Zhu , Heng Lian

Replicability is a lynchpin for credible discoveries. The partial conjunction (PC) p-value, which combines individual base p-values from multiple similar studies, can gauge whether a feature of interest exhibits replicated signals across…

Methodology · Statistics 2025-07-29 Ninh Tran , Dennis Leung

The traditional approaches to false discovery rate (FDR) control in multiple hypothesis testing are usually based on the null distribution of a test statistic. However, all types of null distributions, including the theoretical,…

Methodology · Statistics 2021-04-13 Kun He , Mengjie Li , Yan Fu , Fuzhou Gong , Xiaoming Sun