Paper

A tool for federated training of segmentation models on whole slide images

Manthey, David, Kuang Yu Jen, Becker, Jan U, Lutnick, Brendon R, Sarder, Pinaki, Rodrigues, Luis, Zuckerman, Jonathan E

2021

Overview

The largest bottleneck to the development of convolutional neural network (CNN) models in the computational pathology domain is the collection and curation of diverse training datasets. Training CNNs requires large cohorts of image data, and model generalizability is dependent on training data heterogeneity. Including data from multiple centers enhances the generalizability of CNN based models, but this is hindered by the logistical challenges of sharing medical data. In this paper we explore the feasibility of training our recently developed cloud-based segmentation tool (Histo-Cloud) using federated learning. We show that a federated trained model to segment interstitial fibrosis and tubular atrophy (IFTA) using datasets from three institutions is comparable to a model trained by pooling the data on one server when tested on a fourth (holdout) institution's data. Further, training a model to segment glomeruli for a federated dataset (split by staining) demonstrates similar performance. Competing Interest Statement The authors have declared no competing interest.

• Publisher: Cold Spring Harbor Laboratory Press,Cold Spring Harbor Laboratory
• Subject: Atrophy / Computer applications / Fibrosis / Image processing / Neural networks / Pathology / Segmentation