Christian Matek
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View article: A large expert-annotated single-cell peripheral blood dataset for hematological disease diagnostics
A large expert-annotated single-cell peripheral blood dataset for hematological disease diagnostics Open
Distinguishing cell types in a peripheral blood smear is critical for diagnosing blood diseases, such as leukemia subtypes. Artificial intelligence can assist in automating cell classification. For training robust machine learning algorith…
View article: Current practice of pathologic response assessment following chemoimmunotherapy for non‐small cell lung cancer ( <scp>NSCLC</scp> ) in Germany: first real‐world data from the multicentre Re‐ <scp>GraDE</scp> study
Current practice of pathologic response assessment following chemoimmunotherapy for non‐small cell lung cancer ( <span>NSCLC</span> ) in Germany: first real‐world data from the multicentre Re‐ <span>GraDE</span> study Open
Background Given that pathologists now frequently assess pathologic response following neoadjuvant or perioperative chemoimmunotherapy for NSCLC, we set up a multicentre study to evaluate the current practice of re gression gra ding in Ger…
View article: Domain-incremental white blood cell classification with privacy-aware continual learning
Domain-incremental white blood cell classification with privacy-aware continual learning Open
White blood cell (WBC) classification plays a vital role in hematology for diagnosing various medical conditions. However, it faces significant challenges due to domain shifts caused by variations in sample sources (e.g., blood or bone mar…
View article: Robust Consensus Molecular Subtyping of Muscle-Invasive Bladder Cancer Via 3' RNA Sequencing of Formalin-Fixed Paraffin-Embedded Tissues: Potential Impact for Clinical and Trial Settings
Robust Consensus Molecular Subtyping of Muscle-Invasive Bladder Cancer Via 3' RNA Sequencing of Formalin-Fixed Paraffin-Embedded Tissues: Potential Impact for Clinical and Trial Settings Open
View article: A large expert-annotated single-cell peripheral blood dataset for hematological disease diagnostics
A large expert-annotated single-cell peripheral blood dataset for hematological disease diagnostics Open
Distinguishing cell types in peripheral blood smears is critical for diagnosing blood diseases, such as leukemia subtypes. Artificial intelligence can assist in automating cell classification. For training robust machine learning algorithm…
View article: AI allows pre-screening of FGFR3 mutational status using routine histology slides of muscle-invasive bladder cancer
AI allows pre-screening of FGFR3 mutational status using routine histology slides of muscle-invasive bladder cancer Open
Pathogenic activating mutations in the fibroblast growth factor receptor 3 (FGFR3) drive disease maintenance and progression in urothelial cancer. 10-15% of muscle-invasive and metastatic urothelial cancer (MIBC/mUC) are FGFR3-mutant. Sele…
View article: HLA-G expression associates with immune evasion muscle-invasive urothelial cancer and drives prognostic relevance
HLA-G expression associates with immune evasion muscle-invasive urothelial cancer and drives prognostic relevance Open
Introduction Urothelial bladder cancer is frequent and exhibits diverse prognoses influenced by molecular subtypes, urothelial subtype histology, and immune microenvironments. HLA-G, known for immune regulation, displays significant membra…
View article: A multimodal dataset for precision oncology in head and neck cancer
A multimodal dataset for precision oncology in head and neck cancer Open
Head and neck cancer is a common disease and is associated with a poor prognosis. A promising approach to improving patient outcomes is personalized treatment, which uses information from a variety of modalities. However, only little progr…
View article: B-Cos Aligned Transformers Learn Human-Interpretable Features
B-Cos Aligned Transformers Learn Human-Interpretable Features Open
Vision Transformers (ViTs) and Swin Transformers (Swin) are currently state-of-the-art in computational pathology. However, domain experts are still reluctant to use these models due to their lack of interpretability. This is not surprisin…
View article: Sporadic Colorectal Tubular Adenomas Thrive in Symbiosis With Underlying Nondysplastic Branching Crypts
Sporadic Colorectal Tubular Adenomas Thrive in Symbiosis With Underlying Nondysplastic Branching Crypts Open
Similar findings as those reported here were previously found in TA in Swedish patients. The similarity between these two populations, located in disparate geographical areas and subjected to dissimilar microenvironmental conditions sugges…
View article: Corrigendum to “Proposal for a Novel Histological Scoring System as a Potential Grading Approach for Muscle-invasive Urothelial Bladder Cancer Correlating with Disease Aggressiveness and Patient Outcomes” [European Urology Oncology (2023)]
Corrigendum to “Proposal for a Novel Histological Scoring System as a Potential Grading Approach for Muscle-invasive Urothelial Bladder Cancer Correlating with Disease Aggressiveness and Patient Outcomes” [European Urology Oncology (2023)] Open
The authors regret that the author 'Maurizio Colecchia' was not included in the author list. This has now been corrected as above. The authors would like to apologise for any inconvenience caused. Proposal for a Novel Histological Scoring …
View article: The Number of Colon Crypts in Digital Mucosal Samples: A New Independent Parameter for Diagnosing Ulcerative Colitis
The Number of Colon Crypts in Digital Mucosal Samples: A New Independent Parameter for Diagnosing Ulcerative Colitis Open
Background/Aim: It has been demonstrated that most routine biopsies from the colon and rectum display cross-cut crypts (CCC). The aim was to assess the number of CCC in microscopic isometric digital samples (0.500 mm2) from routine colon b…
View article: Transformer-based biomarker prediction from colorectal cancer histology: A large-scale multicentric study
Transformer-based biomarker prediction from colorectal cancer histology: A large-scale multicentric study Open
View article: Proposal for a Novel Histological Scoring System as a Potential Grading Approach for Muscle-invasive Urothelial Bladder Cancer Correlating with Disease Aggressiveness and Patient Outcomes
Proposal for a Novel Histological Scoring System as a Potential Grading Approach for Muscle-invasive Urothelial Bladder Cancer Correlating with Disease Aggressiveness and Patient Outcomes Open
We developed a novel approach to assess the aggressiveness of advanced bladder cancer, which allows improved risk stratification compared with the method currently proposed by the World Health Organization.
View article: A deep-learning workflow to predict upper tract urothelial cancer subtypes supporting the prioritization of patients for molecular testing
A deep-learning workflow to predict upper tract urothelial cancer subtypes supporting the prioritization of patients for molecular testing Open
Background Urothelial carcinoma of the bladder (UBC) comprises several molecular subtypes, which are associated with different targetable therapeutic options. However, if and how these associations extend to the rare upper tract urothelial…
View article: Data Models for Dataset Drift Controls in Machine Learning With Optical Images - Datasets
Data Models for Dataset Drift Controls in Machine Learning With Optical Images - Datasets Open
This dataset accompanies the paper titled Data Models for Dataset Drift Controls in Machine Learning with Images that appeared in the Transactions on Machine Learning Research https://openreview.net/forum?id=I4IkGmgFJz @article{…
View article: Data Models for Dataset Drift Controls in Machine Learning With Optical Images - Datasets
Data Models for Dataset Drift Controls in Machine Learning With Optical Images - Datasets Open
This dataset accompanies the paper titled Data Models for Dataset Drift Controls in Machine Learning with Images that appeared in the Transactions on Machine Learning Research https://openreview.net/forum?id=I4IkGmgFJz @articl…
View article: Data Models for Dataset Drift Controls in Machine Learning With Optical Images
Data Models for Dataset Drift Controls in Machine Learning With Optical Images Open
Camera images are ubiquitous in machine learning research. They also play a central role in the delivery of important services spanning medicine and environmental surveying. However, the application of machine learning models in these doma…
View article: Built to last? Reproducibility and Reusability of Deep Learning Algorithms in Computational Pathology
Built to last? Reproducibility and Reusability of Deep Learning Algorithms in Computational Pathology Open
Recent progress in computational pathology has been driven by deep learning. While code and data availability are essential to reproduce findings from preceding publications, ensuring a deep learning model’s reusability is more challenging…
View article: Abstract: A Database and Neural Network for Highly Accurate Classification of Single Bone Marrow Cells
Abstract: A Database and Neural Network for Highly Accurate Classification of Single Bone Marrow Cells Open
View article: More than just sound: Harnessing metadata to improve neural network classifiers for medical auscultation
More than just sound: Harnessing metadata to improve neural network classifiers for medical auscultation Open
View article: Highly accurate differentiation of bone marrow cell morphologies using deep neural networks on a large image data set
Highly accurate differentiation of bone marrow cell morphologies using deep neural networks on a large image data set Open
Biomedical applications of deep learning algorithms rely on large expert annotated data sets. The classification of bone marrow (BM) cell cytomorphology, an important cornerstone of hematological diagnosis, is still done manually thousands…
View article: Machine Learning for Health: Algorithm Auditing & Quality Control
Machine Learning for Health: Algorithm Auditing & Quality Control Open
View article: ML4H Auditing: From Paper to Practice
ML4H Auditing: From Paper to Practice Open
View article: Human-level recognition of blast cells in acute myeloid leukemia with convolutional neural networks
Human-level recognition of blast cells in acute myeloid leukemia with convolutional neural networks Open
Reliable recognition of malignant white blood cells is a key step in the diagnosis of hematologic malignancies such as Acute Myeloid Leukemia. Microscopic morphological examination of blood cells is usually performed by trained human exami…
View article: Long-range correlations in the mechanics of small DNA circles under topological stress revealed by multi-scale simulation
Long-range correlations in the mechanics of small DNA circles under topological stress revealed by multi-scale simulation Open
It is well established that gene regulation can be achieved through activator and repressor proteins that bind to DNA and switch particular genes on or off, and that complex metabolic networks determine the levels of transcription of a giv…
View article: Plectoneme tip bubbles: Coupled denaturation and writhing in supercoiled DNA
Plectoneme tip bubbles: Coupled denaturation and writhing in supercoiled DNA Open