Evidence map›Paper›PMID 31158269›Full record

ArticleFrontiers in bioengineering and biotechnology2019

Unsupervised Domain Adaptation for Classification of Histopathology Whole-Slide Images.

Jian Ren, Ilker Hacihaliloglu, Eric A Singer, David J Foran, Xin Qi

Abstract read
In one paragraph

Article in Frontiers in bioengineering and biotechnology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
21citing 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

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

  1. Pooled it
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  17. Machine learning in renal pathology.Frontiers in nephrology · 2022
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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

5 authors.

Jian RenDepartment of Electrical and Computer Engineering, Rutgers University, Piscataway, NJ, United States.
Ilker HacihalilogluDepartment of Biomedical Engineering, Rutgers University, Piscataway, NJ, United States.
Eric A SingerSection of Urologic Oncology, Rutgers Cancer Institute of New Jersey, New Brunswick, NJ, United States.
David J ForanCenter for Biomedical Imaging and Informatics, Rutgers Cancer Institute of New Jersey, New Brunswick, NJ, United States.
Xin QiCenter for Biomedical Imaging and Informatics, Rutgers Cancer Institute of New Jersey, New Brunswick, NJ, United States.

Funding

TRANSCRIPTIONAL PROFILINGP30CA072720 · NCI · UNIV OF MED/DENT NJ-R W JOHNSON MED SCH · PI Chang S Chan · 1997 to 2026
$94.5M
New Jersey Alliance for Clinical Translational Science: NJ ACTSUL1TR003017 · NCATS · RUTGERS BIOMEDICAL/HEALTH SCIENCES-RBHS · PI PANETTIERI, REYNOLD ALEXANDER · 2019 to 2023
$28.9M
Image Mining for Comparative Analysis of Expression Patterns in Tissue MicroarrayR01LM009239 · NLM · UNIV OF MED/DENT NJ-R W JOHNSON MED SCH · PI FORAN, DAVID J, SALTZ, JOEL H. · 2007 to 2016
$4.5M
Methods and Tools for Integrating Pathomics Data into Cancer RegistriesUH3CA225021 · NCI · STATE UNIVERSITY NEW YORK STONY BROOK · PI CLIFFORD, GARI DAVID, DURBIN, ERIC B. · 2020 to 2022
$1.9M
Mechano-Visual Phenotyping of Cancer: From Onset Through Disease ProgressionR01CA161375 · NCI · UNIV OF MARYLAND, COLLEGE PARK · PI DESAI, JAYDEV P., FORAN, DAVID J · 2012 to 2016
$1.6M
Methods and Tools for Integrating Pathomics Data into Cancer RegistriesUG3CA225021 · NCI · STATE UNIVERSITY NEW YORK STONY BROOK · PI DURBIN, ERIC B., FORAN, DAVID J · 2018 to 2019
$815k
NCATS NIH HHS UL1 TR003017NCI NIH HHS P30 CA072720NCI NIH HHS R01 CA161375NCI NIH HHS UG3 CA225021NCI NIH HHS UH3 CA225021NLM NIH HHS R01 LM009239
6 · The paper itself

Abstract

Computational image analysis is one means for evaluating digitized histopathology specimens that can increase the reproducibility and reliability with which cancer diagnoses are rendered while simultaneously providing insight as to the underlying mechanisms of disease onset and progression. A major challenge that is confronted when analyzing samples that have been prepared at disparate laboratories and institutions is that the algorithms used to assess the digitized specimens often exhibit heterogeneous staining characteristics because of slight differences in incubation times and the protocols used to prepare the samples. Unfortunately, such variations can render a prediction model learned from one batch of specimens ineffective for characterizing an ensemble originating from another site. In this work, we propose to adopt unsupervised domain adaptation to effectively transfer the discriminative knowledge obtained from any given source domain to the target domain without requiring any additional labeling or annotation of images at the target site. In this paper, our team investigates the use of two approaches for performing the adaptation: (1) color normalization and (2) adversarial training. The adversarial training strategy is implemented through the use of convolutional neural networks to find an invariant feature space and Siamese architecture within the target domain to add a regularization that is appropriate for the entire set of whole-slide images. The adversarial adaptation results in significant classification improvement compared with the baseline models under a wide range of experimental settings.

Indexed as

adversarial trainingcolor normalizationconvolutional neural networkshistpathologyunsupervised domain adaptation

Identifiers

PMID31158269
PMCPMC6529804

What OpenQuestion holds

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LicenceCC BY
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.