Evidence map›Paper›PMID 35910077›Full record

ArticleJournal of pathology informatics2022

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

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

Abstract read
In one paragraph

Article in Journal of pathology informatics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
  3. Article
  4. A review on federated learning in computational pathology.Computational and structural biotechnology journal · 2024
    Review
  5. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

Brendon LutnickDepartment of Pathology and Anatomical Sciences, SUNY Buffalo, Buffalo, NY, USA.
David MantheyKitware Incorporated, Clifton Park, NY, USA.
Jan U BeckerInstitute of Pathology, University Hospital Cologne, Cologne, Germany.
Jonathan E ZuckermanDepartment of Pathology and Laboratory Medicine, University of California at Los Angeles, Los Angeles, CA, USA.
Luis RodriguesUniversity Clinic of Nephrology, Faculty of Medicine, University of Coimbra, Portugal.
Kuang-Yu JenUniversity of California, Davis School of Medicine, Sacramento, CA, USA.
Pinaki SarderDepartment of Pathology and Anatomical Sciences, SUNY Buffalo, Buffalo, NY, USA.

Funding

Coordinating and Bioinformatics Unit for the MMPC/DiaCompU24DK076169 · NIDDK · AUGUSTA UNIVERSITY · PI MCINDOE, RICHARD A. · 2006 to 2018
$42.4M
ConProject-002U2CDK114886 · NIDDK · UNIVERSITY OF WASHINGTON · PI KRETZLER, MATTHIAS · 2017 to 2021
$21.0M
Coordinating Unit for DiaCompU24DK115255 · NIDDK · AUGUSTA UNIVERSITY · PI MCINDOE, RICHARD A. · 2017 to 2020
$11.6M
Organ Specific ProjectU54HL145608 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JAIN, SANJAY, ZHANG, KUN · 2018 to 2021
$5.6M
Chronic Kidney Disease (CKD) Biomarkers Consortium Data Coordinating CenterU01DK103225 · NIDDK · UNIVERSITY OF PENNSYLVANIA · PI SCHRAUBEN, SARAH JEANNE · 2014 to 2020
$5.5M
Computational Imaging of Renal Structures for Diagnosing DiabeticNephropathyR01DK114485 · NIDDK · UNIVERSITY OF FLORIDA · PI Michael Thomas Eadon, Avi Z Rosenberg · 2018 to 2026
$4.7M
NHLBI NIH HHS U54 HL145608NIDDK NIH HHS R01 DK114485NIDDK NIH HHS U01 DK103225NIDDK NIH HHS U24 DK076169NIDDK NIH HHS U24 DK115255NIDDK NIH HHS U2C DK114886
6 · The paper itself

Abstract

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. Using a dataset of renal tissue biopsies we show that federated training to segment interstitial fibrosis and tubular atrophy (IFTA) using datasets from three institutions is not found to be different from a training 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.

Indexed as

Cloud computingComputational pathologyFederated learningInterstitial fibrosis and tubular atrophyRenal pathology

Identifiers

PMID35910077
PMCPMC9326476

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.