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Multiple sequence alignment (MSA) data play a crucial role in the study of protein mutations, with contact prediction being a notable application. Existing methods are often model-based or algorithmic and typically do not incorporate…

Methodology · Statistics 2026-01-23 Fan Yang , Zhao Ren , Wen Zhou , Kejue Jia , Robert Jernigan

Shrinkage estimators that possess the ability to produce sparse solutions have become increasingly important to the analysis of today's complex datasets. Examples include the LASSO, the Elastic-Net and their adaptive counterparts.…

Methodology · Statistics 2017-02-09 Hongmei Liu , J. Sunil Rao

Anomaly detection is a fundamental yet challenging problem in machine learning due to the lack of label information. In this work, we propose a novel and powerful framework, dubbed as SLA$^2$P, for unsupervised anomaly detection. After…

Machine Learning · Computer Science 2021-11-29 Yizhou Wang , Can Qin , Rongzhe Wei , Yi Xu , Yue Bai , Yun Fu

Prediction-powered inference (PPI) is a method that improves statistical estimates based on limited human-labeled data. Specifically, PPI methods provide tighter confidence intervals by combining small amounts of human-labeled data with…

Machine Learning · Computer Science 2024-05-13 R. Alex Hofer , Joshua Maynez , Bhuwan Dhingra , Adam Fisch , Amir Globerson , William W. Cohen

Physics-informed neural networks (PINNs) incorporate physical knowledge from the problem domain as a soft constraint on the loss function, but recent work has shown that this can lead to optimization difficulties. Here, we study the impact…

Machine Learning · Computer Science 2022-07-12 Shashank Subramanian , Robert M. Kirby , Michael W. Mahoney , Amir Gholami

Obtaining high certainty in predictive models is crucial for making informed and trustworthy decisions in many scientific and engineering domains. However, extensive experimentation required for model accuracy can be both costly and…

Machine Learning · Computer Science 2024-12-17 Giorgio Morales , John Sheppard

Semi-Supervised Learning (SSL) has advanced classification tasks by inputting both labeled and unlabeled data to train a model jointly. However, existing SSL methods only consider the unlabeled data whose predictions are beyond a fixed…

Computer Vision and Pattern Recognition · Computer Science 2022-05-24 Zechen Liang , Yuan-Gen Wang , Wei Lu , Xiaochun Cao

It is common to show the confidence intervals or $p$-values of selected features, or predictor variables in regression, but they often involve selection bias. The selective inference approach solves this bias by conditioning on the…

Methodology · Statistics 2022-06-02 Yoshikazu Terada , Hidetoshi Shimodaira

We theorize that phylogenetic profiles provide a quantitative method that can relate the structural and functional properties of proteins, as well as their evolutionary relationships. A key feature of phylogenetic profiles is the…

Quantitative Methods · Quantitative Biology 2009-11-04 Yoojin Hong , Jaewoo Kang , Dongwon Lee , Randen L. Patterson , Damian B. van Rossum

Many machine learning classification tasks involve imbalanced datasets, which are often subject to over-sampling techniques aimed at improving model performance. However, these techniques are prone to generating unrealistic or infeasible…

Machine Learning · Computer Science 2026-03-17 Matheus Camilo da Silva , Gabriel Gustavo Costanzo , Andrea de Lorenzo , Sylvio Barbon Junior

Adaptive experiments are becoming increasingly popular in real-world applications for effectively maximizing in-sample welfare and efficiency by data-driven sampling. Despite their growing prevalence, however, the statistical foundations…

Statistics Theory · Mathematics 2026-04-15 Ziang Niu , Zhimei Ren

Sufficient statistic perturbation (SSP) is a widely used method for differentially private linear regression. SSP adopts a data-independent approach where privacy noise from a simple distribution is added to sufficient statistics. However,…

Machine Learning · Computer Science 2024-05-27 Cecilia Ferrando , Daniel Sheldon

We introduce the Prediction Advantage (PA), a novel performance measure for prediction functions under any loss function (e.g., classification or regression). The PA is defined as the performance advantage relative to the Bayesian risk…

Machine Learning · Computer Science 2017-05-30 Ran El-Yaniv , Yonatan Geifman , Yair Wiener

We provide a review of recent developments in the calculation of standard errors and test statistics for statistical inference. While much of the focus of the last two decades in economics has been on generating unbiased coefficients,…

Econometrics · Economics 2024-10-04 Jeffrey D. Michler , Anna Josephson

We address the problem of performing regression while ensuring demographic parity, even without access to sensitive attributes during inference. We present a general-purpose post-processing algorithm that, using accurate estimates of the…

Machine Learning · Statistics 2024-07-23 Evgenii Chzhen , Mohamed Hebiri , Gayane Taturyan

In 2023, the U.S. Food and Drug Administration issued guidance for adjustment of covariates in randomized clinical trials, emphasizing its role in enhancing precision and power through prognostic baseline variables. Despite its potential,…

Methodology · Statistics 2026-05-28 Kelly Van Lancker , Iván Díaz , Stijn Vansteelandt

We have entered a new era of machine learning (ML), where the most accurate algorithm with superior predictive power may not even be deployable, unless it is admissible under the regulatory constraints. This has led to great interest in…

Machine Learning · Statistics 2021-08-23 Subhadeep Mukhopadhyay

Modern studies increasingly leverage outcomes predicted by machine learning and artificial intelligence (AI/ML) models, and recent work, such as prediction-powered inference (PPI), has developed valid downstream statistical inference…

Methodology · Statistics 2026-03-18 Yiqun T. Chen , Moran Guo , Shengy Li

Signal Temporal Logic (STL) inference seeks to extract human-interpretable rules from time-series data, but existing methods lack formal confidence guarantees for the inferred rules. Conformal prediction (CP) is a technique that can provide…

Machine Learning · Computer Science 2025-10-23 Danyang Li , Yixuan Wang , Matthew Cleaveland , Mingyu Cai , Roberto Tron

We study semisupervised mean estimation with a small labeled sample, a large unlabeled sample, and a black-box prediction model whose output may be miscalibrated. A standard approach in this setting is augmented inverse-probability…

Machine Learning · Statistics 2026-04-24 Lars van der Laan , Mark Van Der Laan