Deep learning from multiple experts improves identification of amyloid neuropathologies

Daniel R. Wong, Ziqi Tang, Nicholas C. Mew, Sakshi Das, Justin Athey, Kirsty E. McAleese, Julia K. Kofler, Margaret E. Flanagan, Ewa Borys, Charles L. White, Atul J. Butte, Brittany N. Dugger, Michael J. Keiser

Research output: Contribution to journalArticlepeer-review

Abstract

Pathologists can label pathologies differently, making it challenging to yield consistent assessments in the absence of one ground truth. To address this problem, we present a deep learning (DL) approach that draws on a cohort of experts, weighs each contribution, and is robust to noisy labels. We collected 100,495 annotations on 20,099 candidate amyloid beta neuropathologies (cerebral amyloid angiopathy (CAA), and cored and diffuse plaques) from three institutions, independently annotated by five experts. DL methods trained on a consensus-of-two strategy yielded 12.6–26% improvements by area under the precision recall curve (AUPRC) when compared to those that learned individualized annotations. This strategy surpassed individual-expert models, even when unfairly assessed on benchmarks favoring them. Moreover, ensembling over individual models was robust to hidden random annotators. In blind prospective tests of 52,555 subsequent expert-annotated images, the models labeled pathologies like their human counterparts (consensus model AUPRC = 0.74 cored; 0.69 CAA). This study demonstrates a means to combine multiple ground truths into a common-ground DL model that yields consistent diagnoses informed by multiple and potentially variable expert opinions.

Original languageEnglish (US)
Article number66
JournalActa Neuropathologica Communications
Volume10
Issue number1
DOIs
StatePublished - Dec 2022
Externally publishedYes

Keywords

  • Algorithms
  • Amyloid beta
  • Consensus
  • Deep learning
  • Expert annotators
  • Histopathology

ASJC Scopus subject areas

  • Pathology and Forensic Medicine
  • Clinical Neurology
  • Cellular and Molecular Neuroscience

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