Evidence map›Paper›PMID 27795661›Full record

ArticleProceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition

Patch-based Convolutional Neural Network for Whole Slide Tissue Image Classification.

Le Hou, Dimitris Samaras, Tahsin M Kurc, Yi Gao, James E Davis, Joel H Saltz

Abstract read
In one paragraph

Article in Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 239 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
239citing 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

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

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  11. Harnessing interpretable deep learning to predict resistance inFrontiers in cellular and infection microbiology · 2026
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  20. AI-assisted Diagnosis of Nonmelanoma Skin Cancer in Resource-Limited Settings.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2025
    Article

179 more citing papers are in PubMed but not listed here.

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

6 authors.

Le HouDept. of Computer Science, Stony Brook University.
Dimitris SamarasDept. of Computer Science, Stony Brook University.
Tahsin M KurcDept. of Biomedical Informatics, Stony Brook University; Oak Ridge National Laboratory.
Yi GaoDept. of Computer Science, Stony Brook University; Dept. of Biomedical Informatics, Stony Brook University; Dept. of Applied Mathematics and Statistics, Stony Brook University.
James E DavisDept. of Pathology, Stony Brook Hospital.
Joel H SaltzDept. of Computer Science, Stony Brook University; Dept. of Biomedical Informatics, Stony Brook University; Dept. of Pathology, Stony Brook Hospital; Cancer Center, Stony Brook Hospital.

Funding

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
NTP INFORMATION SYSTEMS SUPPORT27305C0011 · NIEHS · Z-TECH CORPORATION · 2007 to 2009
$4.3M
Tools to Analyze Morphology and Spatially Mapped Molecular DataU24CA180924 · NCI · STATE UNIVERSITY NEW YORK STONY BROOK · PI SALTZ, JOEL H. · 2014 to 2019
$3.6M
Informatics for Integrative Brain Tumor Whole Slide AnalysisR01LM011119 · NLM · STATE UNIVERSITY NEW YORK STONY BROOK · PI FORAN, DAVID J, SALTZ, JOEL H. · 2011 to 2014
$1.8M
PROVIDE RABBITS, RATS, MICE, HAMSTERS, GERBILS, GUINEA PIGS27307C0011 · NIEHS · PI BOLEN, WAYNE · 2007 to 2007
$500k
NCI NIH HHS U24 CA180924NIEHS NIH HHS 27305C0011NIEHS NIH HHS 27307C0011NIEHS NIH HHS 27398C0011NLM NIH HHS R01 LM009239NLM NIH HHS R01 LM011119
6 · The paper itself

Abstract

Convolutional Neural Networks (CNN) are state-of-the-art models for many image classification tasks. However, to recognize cancer subtypes automatically, training a CNN on gigapixel resolution Whole Slide Tissue Images (WSI) is currently computationally impossible. The differentiation of cancer subtypes is based on cellular-level visual features observed on image patch scale. Therefore, we argue that in this situation, training a patch-level classifier on image patches will perform better than or similar to an image-level classifier. The challenge becomes how to intelligently combine patch-level classification results and model the fact that not all patches will be discriminative. We propose to train a decision fusion model to aggregate patch-level predictions given by patch-level CNNs, which to the best of our knowledge has not been shown before. Furthermore, we formulate a novel Expectation-Maximization (EM) based method that automatically locates discriminative patches robustly by utilizing the spatial relationships of patches. We apply our method to the classification of glioma and non-small-cell lung carcinoma cases into subtypes. The classification accuracy of our method is similar to the inter-observer agreement between pathologists. Although it is impossible to train CNNs on WSIs, we experimentally demonstrate using a comparable non-cancer dataset of smaller images that a patch-based CNN can outperform an image-based CNN.

Identifiers

PMID27795661
PMCPMC5085270

What OpenQuestion holds

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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.