Wilds: A benchmark of in-the-wild distribution shifts

PW Koh, S Sagawa, H Marklund… - International …, 2021 - proceedings.mlr.press
Distribution shifts—where the training distribution differs from the test distribution—can
substantially degrade the accuracy of machine learning (ML) systems deployed in the wild …

Contrastive learning of single-cell phenotypic representations for treatment classification

A Perakis, A Gorji, S Jain, K Chaitanya, S Rizza… - Machine Learning in …, 2021 - Springer
Learning robust representations to discriminate cell phenotypes based on microscopy
images is important for drug discovery. Drug development efforts typically analyse …

Fully unsupervised deep mode of action learning for phenotyping high-content cellular images

R Janssens, X Zhang, A Kauffmann, A de Weck… - …, 2021 - academic.oup.com
Motivation The identification and discovery of phenotypes from high content screening
images is a challenging task. Earlier works use image analysis pipelines to extract biological …

Batch equalization with a generative adversarial network

WW Qian, C Xia, S Venugopalan… - …, 2020 - academic.oup.com
Motivation Advances in automation and imaging have made it possible to capture a large
image dataset that spans multiple experimental batches of data. However, accurate …

Penalized decomposition using residuals (PeDecURe) for feature extraction in the presence of nuisance variables

SM Weinstein, C Davatzikos, J Doshi, KA Linn… - …, 2023 - academic.oup.com
Neuroimaging data are an increasingly important part of etiological studies of neurological
and psychiatric disorders. However, mitigating the influence of nuisance variables, including …

Statistical Methods for Extracting and Comparing Patterns in Multimodal Neuroimaging Studies

SM Weinstein - 2023 - search.proquest.com
Neuroimaging data are a vital part of advancing our understanding of brain health and the
etiology of neuropsychiatric disorders. But the inherent complexity and dimensionality of …

Examining Batch Effect in Histopathology as a Distributionally Robust Optimization Problem

SN Hari, J Nyman, N Mehta, H Elmarakeby, B Jiang… - bioRxiv, 2021 - biorxiv.org
Computer vision (CV) approaches applied to digital pathology have informed biological
discovery and development of tools to help inform clinical decision-making. However, batch …

Penalized Decomposition Using Residuals (PeDecURe) for Nuisance Variable Adjustment in Multivariate Pattern Analysis

SM Weinstein, C Davatzikos, J Doshi, KA Linn… - bioRxiv, 2022 - biorxiv.org
In neuroimaging studies, multivariate methods provide a framework for studying
associations between complex patterns distributed throughout the brain and neurological …