A5058109622- Cancer Genomics and Diagnostics
- Lung Cancer Treatments and Mutations
- Cancer Immunotherapy and Biomarkers
- Radiomics and Machine Learning in Medical Imaging
- AI in cancer detection
- Immunotherapy and Immune Responses
- Genetic factors in colorectal cancer
- RNA modifications and cancer
- Cell Image Analysis Techniques
- Bioinformatics and Genomic Networks
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Glioma Diagnosis and Treatment
- Colorectal Cancer Treatments and Studies
- T-cell and B-cell Immunology
- Immune Cell Function and Interaction
- Pancreatic and Hepatic Oncology Research
- Cancer Cells and Metastasis
- Epigenetics and DNA Methylation
- Breast Cancer Treatment Studies
- BRCA gene mutations in cancer
- HER2/EGFR in Cancer Research
- Ferroptosis and cancer prognosis
- Cancer-related gene regulation
- Immune cells in cancer
- Molecular Biology Techniques and Applications
Charité - Universitätsmedizin Berlin
2016-2025
Heidelberg University
2014-2025
German Cancer Research Center
2014-2025
Ludwig-Maximilians-Universität München
2021-2025
Deutschen Konsortium für Translationale Krebsforschung
2017-2025
LMU Klinikum
2021-2025
University Hospital Heidelberg
2014-2025
Berlin Institute of Health at Charité - Universitätsmedizin Berlin
2017-2024
Berlin Institute for the Foundations of Learning and Data
2021-2024
Medizinische Hochschule Hannover
2024
Understanding and interpreting classification decisions of automated image systems is high value in many applications, as it allows to verify the reasoning system provides additional information human expert. Although machine learning methods are solving very successfully a plethora tasks, they have most cases disadvantage acting black box, not providing any about what made them arrive at particular decision. This work proposes general solution problem understanding by pixel-wise...
Gene or protein expression data are usually represented by metric at least ordinal variables. In order to translate a continuous variable into clinical decision, it is necessary determine cutoff point and stratify patients two groups each requiring different kind of treatment. Currently, there no standard method software for biomarker determination. Therefore, we developed Cutoff Finder, bundle optimization visualization methods determination that accessible online. While one the based...
Purpose Modulation of immunologic interactions in cancer tissue is a promising therapeutic strategy. To investigate the immunogenicity human epidermal growth factor receptor 2 (HER2) –positive and triple-negative (TN) breast cancers (BCs), we evaluated tumor-infiltrating lymphocytes (TILs) immunologically relevant genes neoadjuvant GeparSixto trial. Patients Methods investigated effect adding carboplatin (Cb) to an anthracycline-plus-taxane combination (PM) on pathologic complete response...
// Jan Budczies 1,2,6,* , Moritz von Winterfeld 1,* Frederick Klauschen 1 Michael Bockmayr Jochen K. Lennerz 3 Carsten Denkert 1,6 Thomas Wolf 4,6 Arne Warth 4 Manfred Dietel Ioannis Anagnostopoulos Wilko Weichert 4,6,7 Daniel Wittschieber 5 and Albrecht Stenzinger Institute of Pathology, Charité University Hospital, Berlin, Germany 2 German Cancer Research Center (DKFZ), Heidelberg, Massachusetts General Hospital/Harvard Medical School, Department Boston, MA, USA Hospital Legal...
Biliary tract cancers (BTC) are relatively rare malignant tumours with poor prognosis. It is known from other solid neoplasms that antitumour inflammatory response has an impact on tumour behaviour and patient outcome. The aim of this study was to provide a comprehensive characterisation in human BTC. Tumour-infiltrating T lymphocytes (CD4+, CD8+, Foxp3+), natural killer cells (perforin+), B (CD20+), macrophages (CD68+) as well mast (CD117+) were assessed by immunohistochemistry 375 BTC...
Automated image analysis of cells and tissues has been an active research field in medical informatics for decades but recently attracted increased attention due to developments computer microscopy hardware the awareness that scientific diagnostic pathology require novel approaches perform objective quantitative analyses cellular tissue specimens. Model-based use a priori information on cell shape features obtain segmentation, which may introduce bias favouring detection nuclei only with...
Abstract The clinical relevance of comprehensive molecular analysis in rare cancers is not established. We analyzed the profiles and outcomes 1,310 patients (rare cancers, 75.5%) enrolled a prospective observational study by German Cancer Consortium that applies whole-genome/exome RNA sequencing to inform care adults with incurable cancers. On basis 472 single six composite biomarkers, cross-institutional tumor board provided evidence-based management recommendations, including diagnostic...
Abstract Deep learning has recently gained popularity in digital pathology due to its high prediction quality. However, the medical domain requires explanation and insight for a better understanding beyond standard quantitative performance evaluation. Recently, many methods have emerged. This work shows how heatmaps generated by these allow resolve common challenges encountered deep learning-based histopathology analyses. We elaborate on biases which are typically inherent histopathological...
Abstract Recent developments in immuno-oncology demonstrate that not only cancer cells, but also the tumor microenvironment can guide precision medicine. A comprehensive and in-depth characterization of is challenging since its cell populations are diverse be important even if scarce. To identify clinically relevant microenvironmental features, we applied single-cell RNA sequencing to ten human lung adenocarcinomas normal control tissues. Our analyses revealed heterogeneous carcinoma...
Atypical EGFR mutations occur in 10%-30% of non-small-cell lung cancer (NSCLC) patients with and their sensitivity to classical epidermal growth factor receptor (EGFR)-tyrosine kinase inhibitors (TKI) is highly heterogeneous. Patients harboring one group uncommon, recurrent (G719X, S768I, L861Q) respond EGFR-TKI. Exon 20 insertions are mostly insensitive EGFR-TKI but display exon inhibitors. Clinical outcome data very rare point compound upon systemic treatments still sparse date.In this...
Abstract We compare three widely used brain volumetry methods available in the software packages FSL, SPM5, and FreeSurfer evaluate their performance using simulated real MR data sets. analyze accuracy of gray white matter volume measurements robustness against changes image quality BrainWeb MRI database. These images are based on “gold‐standard” reference templates. This allows us to assess between‐ (same set, different method) also within‐segmenter method, variation quality) comparability,...