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Staining and Labeling

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Impact of rescanning and normalization on convolutional neural network performance in multi-center, whole-slide classification of prostate cancer.

Scientific reports
Algorithms can improve the objectivity and efficiency of histopathologic slide analysis. In this paper, we investigated the impact of scanning systems (scanners) and cycle-GAN-based normalization on algorithm performance, by comparing different deep ...

Triple U-net: Hematoxylin-aware nuclei segmentation with progressive dense feature aggregation.

Medical image analysis
Nuclei segmentation is a vital step for pathological cancer research. It is still an open problem due to some difficulties, such as color inconsistency introduced by non-uniform manual operations, blurry tumor nucleus boundaries and overlapping tumor...

Semantic segmentation to identify bladder layers from H&E Images.

Diagnostic pathology
BACKGROUND: Identification of bladder layers is a necessary prerequisite to bladder cancer diagnosis and prognosis. We present a method of multi-class image segmentation, which recognizes urothelium, lamina propria, muscularis propria, and muscularis...

Prognostic Significance of Immune Cell Populations Identified by Machine Learning in Colorectal Cancer Using Routine Hematoxylin and Eosin-Stained Sections.

Clinical cancer research : an official journal of the American Association for Cancer Research
PURPOSE: Although high T-cell density is a well-established favorable prognostic factor in colorectal cancer, the prognostic significance of tumor-associated plasma cells, neutrophils, and eosinophils is less well-defined.

Use of Deep Learning to Develop and Analyze Computational Hematoxylin and Eosin Staining of Prostate Core Biopsy Images for Tumor Diagnosis.

JAMA network open
IMPORTANCE: Histopathological diagnoses of tumors from tissue biopsy after hematoxylin and eosin (H&E) dye staining is the criterion standard for oncological care, but H&E staining requires trained operators, dyes and reagents, and precious tissue sa...

A machine learning algorithm for simulating immunohistochemistry: development of SOX10 virtual IHC and evaluation on primarily melanocytic neoplasms.

Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc
Immunohistochemistry (IHC) is a diagnostic technique used throughout pathology. A machine learning algorithm that could predict individual cell immunophenotype based on hematoxylin and eosin (H&E) staining would save money, time, and reduce tissue co...

Detection of Rare Objects by Flow Cytometry: Imaging, Cell Sorting, and Deep Learning Approaches.

International journal of molecular sciences
Flow cytometry nowadays is among the main working instruments in modern biology paving the way for clinics to provide early, quick, and reliable diagnostics of many blood-related diseases. The major problem for clinical applications is the detection ...

Cellular and Molecular Probing of Intact Human Organs.

Cell
Optical tissue transparency permits scalable cellular and molecular investigation of complex tissues in 3D. Adult human organs are particularly challenging to render transparent because of the accumulation of dense and sturdy molecules in decades-age...

Deep Learning Based on Standard H&E Images of Primary Melanoma Tumors Identifies Patients at Risk for Visceral Recurrence and Death.

Clinical cancer research : an official journal of the American Association for Cancer Research
PURPOSE: Biomarkers for disease-specific survival (DSS) in early-stage melanoma are needed to select patients for adjuvant immunotherapy and accelerate clinical trial design. We present a pathology-based computational method using a deep neural netwo...

Hover-Net: Simultaneous segmentation and classification of nuclei in multi-tissue histology images.

Medical image analysis
Nuclear segmentation and classification within Haematoxylin & Eosin stained histology images is a fundamental prerequisite in the digital pathology work-flow. The development of automated methods for nuclear segmentation and classification enables th...