Deep learning beyond cats and dogs: recent advances in diagnosing breast cancer with deep neural networks

Br J Radiol 2018 Detection/Classification 7 Explanations View Original
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Pages 1-2
From Second Opinions to Collaborative Diagnosis

Computer-aided detection and diagnosis (CAD) systems have existed for over three decades, traditionally functioning as second-opinion tools that flag suspicious regions in medical images for a radiologist to review. However, early CAD systems had significant limitations: high false-positive rates, poor diagnosis accuracy, and difficulty handling the natural variation in how tumors appear.

The arrival of deep learning - particularly deep neural networks - has fundamentally changed the landscape. Unlike traditional CAD systems that relied on hand-crafted rules programmed by experts, deep learning algorithms learn the visual features that matter directly from large collections of labeled images, developing their own representations of what cancer looks like.

The implications are significant: deep learning-based CAD systems are now approaching levels of diagnostic accuracy comparable to human radiologists. This shifts their role from a passive safety net that catches what radiologists miss to an active collaborative partner in the diagnostic process.

This review systematically analyzed 28 peer-reviewed publications on deep learning for breast cancer detection and diagnosis, covering applications across mammography, ultrasound, MRI, and digital breast tomosynthesis. It was conducted at a pivotal moment in the field - 2018 - when half of all existing publications had appeared in just the previous two years.

TL;DR: Deep learning has transformed breast cancer CAD systems from crude second-opinion tools into collaborative diagnostic partners approaching radiologist-level accuracy.
Pages 2-3
How Deep Learning Works: A Primer for Clinicians

Neural networks are computing systems loosely inspired by the brain. They process input data (such as a mammogram image) through a series of mathematical layers that progressively transform raw pixel information into higher-level representations. The connections between neurons have adjustable weights - during training, the network adjusts these weights based on examples until it can reliably distinguish patterns associated with different outcomes.

Deep learning specifically refers to neural networks with many layers - sometimes hundreds. The depth allows the network to build complex understanding from simple elements: early layers detect basic features like edges and curves, intermediate layers combine these into shapes and textures, and deeper layers recognize clinically meaningful structures like tumor margins and microcalcifications. This hierarchy closely mirrors how the human visual cortex processes images.

Convolutional Neural Networks (CNNs) are the most important subtype for image analysis. They apply specialized mathematical operations called convolutions that are particularly efficient at detecting spatial patterns while being robust to small shifts in position - a critical property when identifying tumors that can appear anywhere in an image.

Two practical strategies dramatically improve CNN performance on medical images: transfer learning (starting with a network pre-trained on millions of natural images and adapting it to medical imaging) and data augmentation (artificially expanding limited training datasets by applying rotations, flips, noise, and other transformations that can increase dataset size more than 1000-fold).

TL;DR: Deep learning builds hierarchical image representations through many layers of processing, with CNNs being the dominant architecture and transfer learning and data augmentation helping overcome the scarcity of labeled medical images.
Pages 4-6
Deep Learning for Mammography: Detection and Diagnosis Results

The most common approach in early deep learning mammography research was to use pre-trained CNN networks as feature extractors, feeding their output into conventional classifiers like Support Vector Machines or Random Forests rather than classifying images end-to-end. Studies using this approach on standard public datasets like DDSM and INbreast achieved AUC scores ranging from 0.82 to 0.97, representing meaningful improvements over traditional CAD baselines.

End-to-end training - where all network parameters are jointly optimized from input image to diagnostic output - generally produced higher accuracy. For example, one large-scale study trained a CNN on over 62,000 mammography images and achieved an AUC of 0.941, while another YOLO-based detection system achieved 93% sensitivity for region of interest detection on clinical mammograms.

A consistent finding across studies is that patch-based approaches - where small image crops rather than full mammograms are processed - have significant disadvantages. They cannot capture the global context of the entire breast, leading to false positives, and slow down testing time. Full-image approaches that process the entire mammogram at once consistently outperform patch-based methods.

Transfer learning from ImageNet (a dataset of over 1 million natural photographs) showed consistent benefits for mammogram classification despite the obvious differences between natural photos and X-ray images. The key finding is that low-level visual features (edges, textures, curves) learned from natural images transfer well to medical imaging tasks, providing a strong starting point that reduces training data requirements.

TL;DR: Mammography deep learning achieves AUC scores of 0.82-0.97, with full-image end-to-end approaches outperforming patch-based methods, and ImageNet transfer learning consistently improving results.
Page 7
Deep Learning for Ultrasound and MRI

For breast ultrasound, the reviewed studies used more specialized architectures including Pointwise Gated Boltzmann Machines and Stacked Denoising Autoencoders. While these approaches successfully extract higher-level features from shear-wave elastography images, their depth was limited compared to conventional CNNs, constraining their discriminative power. The review notes that applying standard deep CNN approaches to ultrasound remains relatively underexplored.

For MRI-based breast tumor classification, a key advance was the use of 3D CNNs that process full volumetric MRI data rather than individual 2D slices. A 3D CNN with 10 layers outperformed a 2D approach by approximately 8% in AUC on dynamic contrast-enhanced MRI, achieving an AUC of 0.801. This demonstrates that exploiting the full 3D structure of MRI scans is valuable, though it comes with significantly higher computational demands.

For tumor segmentation in MRI, U-Net architectures - named for their characteristic U-shaped design with an encoding path that compresses information and a decoding path that restores spatial detail - have shown promising results for delineating breast tissue and fibroglandular regions. However, U-Net's performance is highly sensitive to the quality of data augmentation used and requires precisely labeled training examples.

A notable gap identified in the review is the complete absence of published studies combining PET/MRI with machine learning for breast cancer. Given evidence that combined PET/MRI achieves AUC of 0.935 and could significantly reduce unnecessary biopsies, this represents a major opportunity for future research.

TL;DR: 3D CNNs improve MRI breast tumor classification by 8% over 2D approaches, while ultrasound AI remains less explored and PET/MRI represents a completely untapped opportunity for machine learning research.
Page 7
Tumor Segmentation with Deep Learning

Segmentation - the task of precisely delineating the boundaries of a tumor rather than just classifying an image - is clinically valuable for treatment planning and tumor size measurement. Deep learning segmentation approaches for mammography have largely followed detection pipelines, using patch-based CNNs that classify each pixel as tumor or normal tissue.

A limitation of patch-based segmentation is its inability to incorporate spatial context: a patch-based system considers each small region in isolation without knowing what the rest of the image looks like. This results in higher false-positive rates compared to methods that process the whole image simultaneously. Post-processing with techniques like conditional random fields is often required to remove implausible pixel-level predictions.

The U-Net architecture has become the standard approach for MRI segmentation, successfully delineating breast and fibroglandular tissue regions. Its encoder-decoder structure allows it to combine high-resolution spatial detail from early layers with high-level semantic understanding from deeper layers - exactly the combination needed for precise boundary delineation.

Generative Adversarial Networks (GANs) are emerging as tools not just for data augmentation but also for synthetic image generation to supplement training data for segmentation tasks. GANs can create realistic-looking but artificial breast images with known tumor locations, addressing the persistent problem of limited annotated training data for complex segmentation models.

TL;DR: U-Net architectures have become the standard for MRI breast tumor segmentation, while patch-based mammography segmentation requires post-processing to overcome spatial context limitations.
Pages 7-9
Challenges Facing Clinical Adoption

The most fundamental barrier is data scarcity. Deep neural networks with millions of parameters require millions of labeled examples to train reliably, but labeled medical imaging datasets contain hundreds to thousands of cases at most. The two main workarounds - shallow networks with fewer parameters, and data augmentation - both have limitations. Augmented samples are highly correlated with each other, which can cause overfitting where the model memorizes training patterns instead of learning generalizable features.

Transfer learning partially solves the data problem but introduces new complications. The effectiveness of knowledge transfer decreases as the source task (classifying natural images) diverges from the target task (diagnosing tumors in X-rays). Architecture selection, how many layers to fine-tune, and how much adaptation data is sufficient are all unresolved design questions without consensus solutions.

Geographic and demographic generalizability is another critical concern. Common breast cancer presentations in one region of the world may be rare elsewhere. A system trained predominantly on images from North American or European patients may perform poorly on patients from different ethnic or genetic backgrounds. Local validation on each target patient population is essential before any clinical deployment.

Interpretability remains a fundamental mismatch between what radiologists need and what deep learning provides. Radiologists need to understand the physical meaning of a diagnostic decision and know which image features drove the recommendation. Most deep learning models operate as black boxes, providing only a probability score without explanation - a significant barrier to clinical trust and regulatory approval.

TL;DR: Data scarcity, transfer learning limitations, lack of demographic generalizability, and missing interpretability are the four core challenges preventing widespread clinical deployment of breast cancer deep learning tools.
Pages 8-9
The Road to Clinical Use: FDA Approval and Practice Impact

The regulatory pathway for AI-based CAD systems is established but demanding. The FDA requires both standalone performance assessments and clinical workflow evaluations comparing performance with and without the CAD tool. The first FDA-approved CAD system for mammography (Image Checker) was approved in 1998, and by 2018 several deep-learning-based systems had received or were pending approval.

One commercially available deep-learning CAD system - QVCAD by QView Medical - had received FDA approval for 3D automated breast ultrasound analysis in late 2016. This represented an early milestone demonstrating that regulatory bodies were prepared to review and approve deep learning-based tools when sufficient clinical evidence was provided.

For radiologists to trust and routinely use these systems, three practical requirements must be met: the system must handle rare cases gracefully (with explicit uncertainty estimation rather than confident wrong answers); it must allow radiologists to upload and correct predictions to continuously improve performance; and it must function in a cloud environment accessible across different clinical sites without requiring local hardware.

The broader clinical impact extends beyond detection accuracy. Deep learning tools could reduce interpretation time, flag cases for urgent review, and help train radiology residents using GAN-generated synthetic images of rare or difficult presentations. The goal is not AI replacing radiologists but a fundamentally more efficient and accurate partnership between human expertise and machine pattern recognition.

TL;DR: FDA approval pathways exist and early approvals have been granted, but routine clinical adoption requires interpretable uncertainty estimates, continuous learning from corrections, and cloud-accessible deployment.
Citation: Open Access, 2018. Available at: PMC6223155.