Efficient Tissue Detection in Whole-Slide Images Using Classical and Hybrid Methods: Benchmark on TCGA Cancer Cohorts

<b>Background</b>: Whole-slide images (WSIs) are crucial in pathology for digitizing tissue slides, enabling pathologists and AI models to analyze cancer patterns at gigapixel scale. However, their large size incorporates artifacts and non-tissue regions that slow AI processing, consume resources, and introduce errors like false positives. Tissue detection serves as the essential first step in WSI pipelines to focus on relevant areas, but deep learning detection methods require extensive manual annotations. Methods: This study benchmarks four thumbnail-level tissue detection methods-Otsu's thresholding, K-Means clustering, our novel annotation-free Double-Pass hybrid, and GrandQC's UNet++ on 3322 TCGA WSIs from nine cancer cohorts, evaluating accuracy, speed, and efficiency. <b>Results:</b> Double-Pass achieved an mIoU of 0.826-very close to the deep learning GrandQC model's 0.871-while processing slides on a CPU in just 0.203 s per slide, markedly faster than GrandQC's 2.431 s per slide on the same hardware. As an annotation-free, CPU-optimized method, it therefore enables efficient, scalable thumbnail-level tissue detection on standard workstations. <b>Conclusions:</b> The scalable, annotation-free Double-Pass pipeline reduces computational bottlenecks and facilitates high-throughput WSI preprocessing, enabling faster and more cost-effective integration of AI into clinical pathology and research workflows. Comparing Double-Pass against established methods, this benchmark demonstrates its novelty as a fast, robust and annotation-free alternative to supervised methods.

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Publication Details

Journal
Cancers
Published
2025-09-05
DOI
https://doi.org/10.3390/cancers17172918
Primary Topic
AI in cancer detection
Type
article
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article

Efficient Tissue Detection in Whole-Slide Images Using Classical and Hybrid Methods: Benchmark on TCGA Cancer Cohorts

Flaviu Mureșan, Mihai Trăşcău, Bogdan Ceachi, Adina Magda Florea
Cancers
AI in cancer detection
article

Efficient Tissue Detection in Whole-Slide Images Using Classical and Hybrid Methods: Benchmark on TCGA Cancer Cohorts

Flaviu Mureșan, Mihai Trăşcău, Bogdan Ceachi, Adina Magda Florea
article en

Abstract

<b>Background</b>: Whole-slide images (WSIs) are crucial in pathology for digitizing tissue slides, enabling pathologists and AI models to analyze cancer patterns at gigapixel scale. However, their large size incorporates artifacts and non-tissue regions that slow AI processing, consume resources, and introduce errors like false positives. Tissue detection serves as the essential first step in WSI pipelines to focus on relevant areas, but deep learning detection methods require extensive manual annotations. Methods: This study benchmarks four thumbnail-level tissue detection methods-Otsu's thresholding, K-Means clustering, our novel annotation-free Double-Pass hybrid, and GrandQC's UNet++ on 3322 TCGA WSIs from nine cancer cohorts, evaluating accuracy, speed, and efficiency. <b>Results:</b> Double-Pass achieved an mIoU of 0.826-very close to the deep learning GrandQC model's 0.871-while processing slides on a CPU in just 0.203 s per slide, markedly faster than GrandQC's 2.431 s per slide on the same hardware. As an annotation-free, CPU-optimized method, it therefore enables efficient, scalable thumbnail-level tissue detection on standard workstations. <b>Conclusions:</b> The scalable, annotation-free Double-Pass pipeline reduces computational bottlenecks and facilitates high-throughput WSI preprocessing, enabling faster and more cost-effective integration of AI into clinical pathology and research workflows. Comparing Double-Pass against established methods, this benchmark demonstrates its novelty as a fast, robust and annotation-free alternative to supervised methods.

CancersVol. 17(17)
Institutul National Victor Babes (RO), Universitatea Națională de Știință și Tehnologie Politehnica București (RO)
Openalex Percentile: Top 88%
AI in cancer detection
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Efficient Tissue Detection in Whole-Slide Images Using Classical and Hybrid Methods: Benchmark on TCGA Cancer Cohorts — Flaviu Mureșan, Mihai Trăşcău, et al. · Cancers (2025) | TGRS Research Map | TGRS