Ewan K.A. Millar
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View article: GRAPHITE: Graph-based interpretable tissue examination for enhanced explainability in breast cancer histopathology
GRAPHITE: Graph-based interpretable tissue examination for enhanced explainability in breast cancer histopathology Open
Explainable AI (XAI) in medical histopathology is essential for enhancing the interpretability and clinical trustworthiness of deep learning models in cancer diagnosis. However, the black-box nature of these models often limits their clini…
View article: JNK pathway suppression mediates insensitivity to combination endocrine therapy and CDK4/6 inhibition in ER+ breast cancer
JNK pathway suppression mediates insensitivity to combination endocrine therapy and CDK4/6 inhibition in ER+ breast cancer Open
CDK4/6 inhibitors in combination with endocrine therapy are now used as front-line treatment for patients with estrogen-receptor positive (ER+) breast cancer. While this combination improves overall survival, the mechanisms of disease prog…
View article: Interaction between the breast tumor microenvironment and gut microbiome
Interaction between the breast tumor microenvironment and gut microbiome Open
Previously believed to be sterile, the breast microenvironment has been revealed by modern DNA sequencing technologies to harbor a diverse community of microorganisms. The breast tumor microenvironment (TME) has a microbial signature uniqu…
View article: A selective inhibitor of oncogenic JNK signalling perturbs metastatic outgrowth of triple-negative breast cancer through metabolic blockade
A selective inhibitor of oncogenic JNK signalling perturbs metastatic outgrowth of triple-negative breast cancer through metabolic blockade Open
Summary Although c-Jun N-terminal Kinase (JNK) represents an attractive anti-cancer target, its pleiotropic functionality limits the use of direct JNK inhibitors. Here, we identify a distinct subcellular pattern of JNK activity as a therap…
View article: Leveraging Vision-Language Embeddings for Zero-Shot Learning in Histopathology Images
Leveraging Vision-Language Embeddings for Zero-Shot Learning in Histopathology Images Open
Zero-shot learning holds tremendous potential for histopathology image analysis by enabling models to generalize to unseen classes without extensive labeled data. Recent advancements in vision-language models (VLMs) have expanded the capab…
View article: JNK pathway suppression drives resistance to combination endocrine therapy and CDK4/6 inhibition in ER+ breast cancer
JNK pathway suppression drives resistance to combination endocrine therapy and CDK4/6 inhibition in ER+ breast cancer Open
Endocrine therapy in combination with CDK4/6 inhibition doubles the progression-free survival of patients with advanced ER + breast cancer, but resistance is inevitable, leaving patients with limited treatment options. Here, we performed u…
View article: GRAPHITE: Graph-Based Interpretable Tissue Examination for Enhanced Explainability in Breast Cancer Histopathology
GRAPHITE: Graph-Based Interpretable Tissue Examination for Enhanced Explainability in Breast Cancer Histopathology Open
Explainable AI (XAI) in medical histopathology is essential for enhancing the interpretability and clinical trustworthiness of deep learning models in cancer diagnosis. However, the black-box nature of these models often limits their clini…
View article: Leveraging Vision-Language Embeddings for Zero-Shot Learning in Histopathology Images
Leveraging Vision-Language Embeddings for Zero-Shot Learning in Histopathology Images Open
Zero-shot learning (ZSL) offers tremendous potential for histopathology image analysis, enabling models to generalize to unseen classes without extensive labeled data. Recent vision-language model (VLM) advancements have expanded ZSL capab…
View article: A foundation model for clinical-grade computational pathology and rare cancers detection
A foundation model for clinical-grade computational pathology and rare cancers detection Open
The analysis of histopathology images with artificial intelligence aims to enable clinical decision support systems and precision medicine. The success of such applications depends on the ability to model the diverse patterns observed in p…
View article: BioFusionNet: Deep Learning-Based Survival Risk Stratification in ER+ Breast Cancer Through Multifeature and Multimodal Data Fusion
BioFusionNet: Deep Learning-Based Survival Risk Stratification in ER+ Breast Cancer Through Multifeature and Multimodal Data Fusion Open
Breast cancer is a significant health concern affecting millions of women worldwide. Accurate survival risk stratification plays a crucial role in guiding personalised treatment decisions and improving patient outcomes. Here we present Bio…
View article: Semi-supervised variational autoencoder for cell feature extraction in multiplexed immunofluorescence images
Semi-supervised variational autoencoder for cell feature extraction in multiplexed immunofluorescence images Open
Advancements in digital imaging technologies have sparked increased interest in using multiplexed immunofluorescence (mIF) images to visualise and identify the interactions between specific immunophenotypes with the tumour microenvironment…
View article: Artificial Intelligence Helps Pathologists Increase Diagnostic Accuracy and Efficiency in the Detection of Breast Cancer Lymph Node Metastases
Artificial Intelligence Helps Pathologists Increase Diagnostic Accuracy and Efficiency in the Detection of Breast Cancer Lymph Node Metastases Open
The detection of lymph node metastases is essential for breast cancer staging, although it is a tedious and time-consuming task where the sensitivity of pathologists is suboptimal. Artificial intelligence (AI) can help pathologists detect …
View article: A single-cell and spatially resolved atlas of human breast cancers
A single-cell and spatially resolved atlas of human breast cancers Open
Breast cancers are complex cellular ecosystems where heterotypic interactions play central roles in disease progression and response to therapy. However, our knowledge of their cellular composition and organization is limited. Here we pres…
View article: MM-SurvNet: Deep Learning-Based Survival Risk Stratification in Breast Cancer Through Multimodal Data Fusion
MM-SurvNet: Deep Learning-Based Survival Risk Stratification in Breast Cancer Through Multimodal Data Fusion Open
Survival risk stratification is an important step in clinical decision making for breast cancer management. We propose a novel deep learning approach for this purpose by integrating histopathological imaging, genetic and clinical data. It …
View article: Virchow: A Million-Slide Digital Pathology Foundation Model
Virchow: A Million-Slide Digital Pathology Foundation Model Open
The use of artificial intelligence to enable precision medicine and decision support systems through the analysis of pathology images has the potential to revolutionize the diagnosis and treatment of cancer. Such applications will depend o…
View article: <scp>MCP</scp>‐1 expression in breast cancer and its association with distant relapse
<span>MCP</span>‐1 expression in breast cancer and its association with distant relapse Open
Background Distant relapse of breast cancer complicates management of the disease and accounts for 90% of breast cancer‐related deaths. Monocyte chemoattractant protein‐1 (MCP‐1) has critical roles in breast cancer progression and is widel…
View article: Breast cancer histopathology image-based gene expression prediction using spatial transcriptomics data and deep learning
Breast cancer histopathology image-based gene expression prediction using spatial transcriptomics data and deep learning Open
Tumour heterogeneity in breast cancer poses challenges in predicting outcome and response to therapy. Spatial transcriptomics technologies may address these challenges, as they provide a wealth of information about gene expression at the c…
View article: hist2RNA: An Efficient Deep Learning Architecture to Predict Gene Expression from Breast Cancer Histopathology Images
hist2RNA: An Efficient Deep Learning Architecture to Predict Gene Expression from Breast Cancer Histopathology Images Open
Gene expression can be used to subtype breast cancer with improved prediction of risk of recurrence and treatment responsiveness over that obtained using routine immunohistochemistry (IHC). However, in the clinic, molecular profiling is pr…
View article: hist2RNA: An efficient deep learning architecture to predict gene expression from breast cancer histopathology images
hist2RNA: An efficient deep learning architecture to predict gene expression from breast cancer histopathology images Open
Gene expression can be used to subtype breast cancer with improved prediction of risk of recurrence and treatment responsiveness over that obtained using routine immunohistochemistry (IHC). However, in the clinic, molecular profiling is pr…
View article: Supplementary methods from The Magnitude of Androgen Receptor Positivity in Breast Cancer Is Critical for Reliable Prediction of Disease Outcome
Supplementary methods from The Magnitude of Androgen Receptor Positivity in Breast Cancer Is Critical for Reliable Prediction of Disease Outcome Open
Supplementary Methods
View article: Figure S2 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Figure S2 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense Open
Comparative genomics of predicted miR-139-5p binding sites across 15 eutherian mammals (A). Correlation between endogenous miR-139-5p expression and predicted targets in 207 primary BC tumors (B).
View article: Figure S1 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Figure S1 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense Open
miR-139-5p mimic transfection sensitized MCF7 cells to a fractionated radiation dose.
View article: Supplementary Figure Legends from The Magnitude of Androgen Receptor Positivity in Breast Cancer Is Critical for Reliable Prediction of Disease Outcome
Supplementary Figure Legends from The Magnitude of Androgen Receptor Positivity in Breast Cancer Is Critical for Reliable Prediction of Disease Outcome Open
Supplementary Figure Legends
View article: Supplementary Figures from The Magnitude of Androgen Receptor Positivity in Breast Cancer Is Critical for Reliable Prediction of Disease Outcome
Supplementary Figures from The Magnitude of Androgen Receptor Positivity in Breast Cancer Is Critical for Reliable Prediction of Disease Outcome Open
Supplementary Figures 1-3
View article: Tables S1-6 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Tables S1-6 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense Open
Supplementary Tables 1-6 Supp. Table 1: Clinicopathological characteristics of breast cancer patients whose tumours were profiled by miRNA expression microarrays to identify miRNAs associated with local relapse following radiotherapy. Supp…
View article: Figure S1 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Figure S1 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense Open
miR-139-5p mimic transfection sensitized MCF7 cells to a fractionated radiation dose.
View article: Data from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Data from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense Open
Radiotherapy is essential to the treatment of most solid tumors and acquired or innate resistance to this therapeutic modality is a major clinical problem. Here we show that miR-139-5p is a potent modulator of radiotherapy response in brea…
View article: Figure S4 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Figure S4 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense Open
RT + miR-139-5p mimic-treated tumours had significantly decreased Ki-67-positive cells, and significantly increased phospho-H2AX- and caspase-3-positive cells compared to control mimic-treated tumours (A-C). phospho-H2AX immunostaining was…