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Articles by Ingo Roeder
Fair distributed machine learning with imbalanced data as a Stackelberg evolutionary game
Abstract Decentralised machine learning systems trained on heterogeneous and imbalanced data face a fundamental tension between predictive performance and equitable contribution across participating nodes.
Tissue-scale mapping reveals a central role of hepatoblasts in the regulation of fetal liver hematopoiesis and stem cell maintenance
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Keywords hematopoietic stem cells hepatoblasts 3D quantitative imaging niches Introduction Fetal liver (FL) tissues play fundamental roles in the development of the hematopoietic system.1 In mice, the FL primordium is seeded by a heterogeneous set of hematopoietic progenitors (HPCs) with limited differentiation potential, which are generated in the yolk sac (FS) between days 7 and 9 of gestation (E7 and E9) and support hematopoietic function throughout fetal life.2,3 Shortly after (E11.5),...
By Anjali Vijaykumar, Patrick Helbling, Flavian Thelen, YeVin Mun, Ana Luísa Pereira, Karolina Zielinska, Paul Büschl, Thomas Zerjatke, Stephan Isringhausen, Bjoern Menze, Takashi Nagasawa, Ingo Roeder, Alvaro Gomariz, Markus G. Manz, Tomomasa Yokomizo, César Nombela-Arrieta, Serena Fazio, Kathrin Loosli
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Cell Press
Verified
Quantification and modeling of stem cell-niche interaction
Adult stem cells persist lifelong in the organism, where they are responsible for tissue homeostasis and repair. It is commonly assumed that their maintenance and function are facilitated in local environments called "stem cell niches." Although there is convincing evidence that a variety of niche components determine stem cell fate, the regulatory details of stem cell-niche interactions are widely unknown.
Asymmetry of stem cell fate and the potential impact of the niche: observations, simulations, and interpretations
Asymmetric cell division is a common concept to explain the capability of stem cells to simultaneously produce a continuous output of differentiated cells and to maintain their own population of undifferentiated cells. Whereas for some stem cell systems, an asymmetry in the division process has explicitly been demonstrated, no evidence for such a functional asymmetry has been shown for hematopoietic stem cells (HSC) so far.
Stem cell biology meets systems biology
Stem cells and their descendents are the building blocks of life. How stem cell populations guarantee their maintenance and/or self-renewal, and how individual stem cells decide to transit from one cell stage to another to generate different cell types are long-standing and fascinating questions in the field.
Impact of exposure frequency on disease burden of the common cold - A mathematical modeling perspective
The common cold is a frequent disease in humans and can be caused by a multitude of different viruses. Despite its typically mild nature, the high prevalence of the common cold causes significant human suffering and economic costs. Oftentimes, strategies to reduce contacts are used in order to prevent infection.
Predicting treatment-free remission in chronic myeloid leukemia patients using an integrated model of tumor-immune dynamics
Abstract External IDs PubMedCentral PMC12533171 Scopus 105018963798 Keywords Humans, Leukemia, Myelogenous, Chronic, BCR-ABL Positive/immunology, Killer Cells, Natural/immunology, Remission Induction, Treatment Outcome, Models, Biological
Predicting treatment-free remission outcomes in Chronic Myeloid Leukemia patients using an integrated model of tumor-immune dynamics
Abstract The interactions between tumor and the immune system are main factors in determining cancer treatment outcomes. In Chronic Myeloid Leukemia (CML), considerable evidence shows that the dynamics between residual leukemia and the patient's immune system can result in either sustained disease control, leading to treatment-free remission (TFR), or disease recurrence. The question remains how to integrate mechanistic and data-driven models to support prediction of treatment outcomes.
Impact of exposure frequency on disease burden of the common cold - a mathematical modeling perspective
The authors have declared no competing interest. This study did not receive any funding I confirm all relevant ethical guidelines have been followed, and any necessary IRB and/or ethics committee approvals have been obtained.
Clonal hematopoiesis and its impact on the aging osteo-hematopoietic niche - Leukemia
Abstract Clonal hematopoiesis (CH) defines a premalignant state predominantly found in older persons that increases the risk of developing hematologic malignancies and age-related inflammatory diseases. However, the risk for malignant transformation or non-malignant disorders is variable and difficult to predict, and defining the clinical relevance of specific candidate driver mutations in individual carriers has proved to be challenging.
Impact of BCR::ABL1 transcript type on RT-qPCR amplification performance and molecular response to therapy - Leukemia
Abstract Several studies have reported that chronic myeloid leukaemia (CML) patients expressing e14a2 BCR::ABL1 have a faster molecular response to therapy compared to patients expressing e13a2. To explore the reason for this difference we undertook a detailed technical comparison of the commonly used Europe Against Cancer (EAC) BCR::ABL1 reverse transcriptase quantitative polymerase chain reaction (RT-qPCR) assay in European Treatment and Outcome Study (EUTOS) reference laboratories (n = 10).
Mathematical basis for the assessment of antibiotic resistance and administrative counter-strategies
Loading metrics Open Access Peer-reviewed Research Article Hans H. Diebner , Anna Kather, Ingo Roeder , Katja de With Hans H.
Analysis of chronic myeloid leukaemia during deep molecular response by genomic PCR: a traffic light stratification model with impact on treatment-free remission
Abstract This work investigated patient-specific genomic BCR-ABL1 fusions as markers of measurable residual disease (MRD) in chronic myeloid leukaemia, with a focus on relevance to treatment-free remission (TFR) after achievement of deep molecular response (DMR) on tyrosine kinase inhibitor (TKI) therapy. DNA and mRNA BCR-ABL1 measurements by qPCR were compared in 2189 samples (129 patients) and by digital PCR in 1279 sample (62 patients).
Multi-scale imaging and analysis identify pan-embryo cell dynamics of germlayer formation in zebrafish
Abstract The coordination of cell movements across spatio-temporal scales ensures precise positioning of organs during vertebrate gastrulation. Mechanisms governing such morphogenetic movements have been studied only within a local region, a single germlayer or in whole embryos without cell identity. Scale-bridging imaging and automated analysis of cell dynamics are needed for a deeper understanding of tissue formation during gastrulation.
Automated detection of the HER2 gene amplification status in Fluorescence in situ hybridization images for the diagnostics of cancer tissues
Abstract The human epidermal growth factor receptor 2 (HER2) gene amplification status is a crucial marker for evaluating clinical therapies of breast or gastric cancer. We propose a deep learning-based pipeline for the detection, localization and classification of interphase nuclei depending on their HER2 gene amplification state in Fluorescence in situ hybridization (FISH) images.
Placement makes a difference: Accuracy of an accelerometer in measuring step number and stair climbing
Accurate and easy-to-use measurement tools are required to evaluate the effect of treatments on patient activity. Comfortable device placement and fixation are important for patient compliance. The aim of this study was the evaluation of the accuracy of an accelerometer at different placements and slow velocities.
Process-based approach to modeling recurrent-event data explicated on the basis of occurrences of tooth losses in two different prosthetic treatment concepts
Background: In studies comparing different prosthetic treatment concepts the repeated loss of teeth was chosen as the primary outcome. The resulting data appear to represent a data structure of recurrent events. However, the application of an existing method for recurrent events is far from straightforward. Often only the first event or the final state is analyzed using Kaplan-Meier survival statistics, thereby giving a great deal of information away.
Discrete stem cells: subsets or a continuum?
Discrete stem cells: subsets or a continuum? Research output: Contribution to journal › Research article › Contributed › peer-review
Competitive clonal hematopoiesis in mouse chimeras explained by a stochastic model of stem cell organization
Abstract Schlagworte Animals, Antineoplastic Agents/pharmacology, Cytokines/pharmacology, Female, Hematopoiesis/drug effects, Hematopoietic Stem Cell Transplantation, Hematopoietic Stem Cells/cytology, Mice, Mice, Inbred C57BL, Mice, Inbred DBA, Models, Biological, Pregnancy, Radiation Chimera, Stochastic Processes, Transplantation Chimera
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