8 Dec 2020 The Menze group publishes DeepVesselNet, a deep learning approach to perform vessel segmentation, centerline prediction, and bifurcation detection tasks DeepVesselNet: Vessel Segmentation, Centerline Prediction, and Bifurcation Detection in 3-D Angiographic Volumes See Tetteh et al, Front. Neurosci. The code can be found on GitHub: Tetteh, 2019a A ready-to-use implementation is available as companion material to the publication “Machine learning analysis of whole mouse brain vasculature”Todorov et al., 2020 Fig.1: An overview of the three main tasks tackled in this paper. © 2020 The Author(s) More news 19.05.2022 The Bodenmiller group's research is featured in EU GrantsAccess' Science Stories 29.04.2022 The Joller group publishes a review on the interplay between regulatory T cells and peripheral tissues 25.04.2022 The Menze group develops a convolutional neural network for residual motion correction in fast whole-brain MRI 05.04.2022 The Kümmerli group shows that enforced specialization fosters mutual cheating, but not division of labour, in P. aeruginosa 01.04.2022 The Bodenmiller group characterises chemokine expression and function in melanoma 17.03.2022 Magdalini Polymenidou receives an ERC Consolidator Grant 28.02.2022 The Menze group develops a deep neural network to reconstruct the 3D standing spine posture from 2D Radiographs 18.02.2022 The Polymenidou group publishes a protocol for the identification of RNA–RBP interactions in subcellular compartments by CLIP-Seq 10.02.2022 Zsolt Balázs (Krauthammer group) wins the Pfizer Research Prize 2022 07.02.2022 Watch Bernd Bodenmiller's video on innovative research at the Comprehensive Cancer Center Zurich (german only) 27.01.2022 The Kümmerli group and collaborators publish a high-throughput method to elucidate siderophores from natural Pseudomonas 24.12.2021 The Bodenmiller group develops a 3D IMC approach for multiplexed 3D tissue analysis at single-cell resolution 20.12.2021 The Menze group publishes a geometry-aware neural solver for fast Bayesian calibration of brain tumor models 17.12.2021 DQBM's roundup of 2021 16.12.2021 Michael Krauthammer's team is part of the new Innosuisse Flagship Project 'Smart Hospital' 07.12.2021 Prof. Dr. Nicole Joller and her team join the DQBM 06.12.2021 Rolf Kümmerli appointed Associate Professor for Evolution of Human Microbiomes and Pathogens 03.12.2021 The Krauthammer group and collaborators publish a perspective paper on analyzing patient trajectories with AI 02.12.2021 The Polymenidou group is awarded an SNSF Sinergia Grant together with collaborators at UZH and ETHZ 29.11.2021 "Bridging the Gap to Patients" 22.11.2021 The Polymenidou group shows that patient-derived pathological TDP-43 triggers de novo aggregation of physiological TDP-43 in host cells 17.11.2021 Johanna Wagner (Alumnus Bodenmiller group) wins the 2021 Ida de Pottère-Leupold and Dr. iur. Erik de Pottère Cancer Research Award 09.11.2021 The Kümmerli group identifies a dual role for siderophores in driving invasion dynamics in bacterial communities 02.11.2021 Johanna Furrer (Polymenidou group) wins the Faculty of Science's Semester Prize 20.10.2021 The Polymenidou group publishes a 'Spotlight' on benefits of distributing protein aggregates among microglial networks 14.09.2021 The Menze group publishes a deep learning-based approach to segment the claustrum in human brain MRI scans 26.08.2021 DQBM's wet lab groups are moving into UZI5 26.08.2021 The Kümmerli group uses single-cell imaging to show that S. aureus is highly competitive against P. aeruginosa on surfaces 25.08.2021 The Krauthammer group publishes BE-DICT: An attention-based deep learning algorithm to predict base editing outcomes 21.08.2021 The Krauthammer group publishes AttentionDDI: Siamese attention-based deep learning method for drug-drug interaction predictions 14.08.2021 The Kümmerli group shows that ecology drives evolution of social strategies in P. aeruginosa 26.07.2021 The Polymenidou group and collaborators show that LAG3 does not modulate α-synucleinopathies 22.07.2021 The Menze group and collaborators publish VerSe: A vertebrae labelling and segmentation benchmark for multi-detector CT images 13.07.2021 Bjoern Menze and Ender Konukoglu (ETHZ) organise 'MIDL 2022 - Medical Imaging with Deep Learning' in Zurich 29.06.2021 Watch the #NCCRWomen feature on Magdalini Polymenidou 08.06.2021 The Kümmerli group publishes their work on drivers of siderophore-mediated social interactions in natural bacterial communities 21.05.2021 The Polymenidou group shows that synaptic FUS accumulation triggers early misregulation of synaptic RNAs in an ALS mouse model 17.05.2021 Watch Michael Krauthammer's Inaugural Lecture 'Wie Daten und künstliche Intelligenz die Medizin von morgen prägen' 30.04.2021 The Bodenmiller group shows that mapping the breast cancer signaling network improves drug sensitivity prediction 22.04.2021 Watch Michael Krauthammer's 'Clinics meets Bioinformatics' Keynote on AI Support in the Clinic 21.04.2021 The Bodenmiller group publishes their collaborative work on dysregulation of T cell homeostasis and function in severe COVID-19 09.03.2021 The Krauthammer group publishes their collaborative work on AI support for ethical decision-making around resuscitation 12.02.2021 Watch Michael Krauthammer's NGW talk on AI in Medicine 23.01.2021 The Menze group publishes their review on deep learning for medical image analysis 21.01.2021 The Krauthammer group publishes their collaborative work on oncolytic virotherapy-mediated anti-tumor response 21.01.2021 The Tumor Profiler Consortium publishes their study on integrated, multi-omic, functional tumor profiling for clinical decision support 26.12.2020 The Bodenmiller group publishes the cytomapper package, a tool to visualise highly multiplexed imaging data in R 25.12.2020 The Bodenmiller group publishes their collaborative work on innate immune responses in COVID-19 22.12.2020 The Polymenidou group publishes their collaborative work on direct binding of importins to arginine-rich dipeptide repeat proteins 18.12.2020 DQBM's roundup of 2020 16.12.2020 The Bodenmiller group publishes their work on spatial phenotypic variability in 3D spheroids 15.12.2020 The Kümmerli group publishes their collaborative work on population invasion through exploitation of Pseudomonas aeruginosa public goods 06.11.2020 The Menze group publishes a Deep Learning-enabled tool for segmentation of organs in whole-body mouse scans 12.10.2020 The Polymenidou group publishes their review on liquid-liquid phase separation in neurodegeneration 09.10.2020 The Polymenidou group receives competitive EU Consortium Grant 25.09.2020 Bernd Bodenmiller appointed as Dual Professor for Quantitative Biomedicine at UZH and ETH Zurich 18.08.2020 The Kümmerli group shows the potential of combining antivirulence drugs with antibiotics against an opportunistic human pathogen 04.08.2020 The Bodenmiller group receives SNF support to study primary immune response & memory in COVID-19 patients 30.07.2020 The Bodenmiller group publishes their collaborative work on CD4+ T Helper Cell response heterogeneity 29.07.2020 Prof. Dr. Bjoern Menze and his team join the DQBM 10.07.2020 The Kümmerli group shows how biotic and abiotic factors affect competitive dynamics between co-infecting human pathogens 17.06.2020 The Kümmerli group shows that competition overrides inter-species cooperation in bacteria 16.06.2020 The Krauthammer group publishes their work on deep learning-based multimodal fusion techniques to reduce annotation burden 09.06.2020 The Krauthammer Group publishes their work on machine learning models for assessing the quality of online health information. 11.05.2020 The Kümmerli group publishes their collaborative work on iron-driven phytopathogen control by natural rhizosphere microbiomes 04.05.2020 Magdalini Polymenidou awarded Franco Regli Prize 2018/2019 28.04.2020 The Krauthammer group publishes a data anonymization reference classification merging legal and technical considerations 25.04.2020 Johanna Wagner-Albrecht (Bodenmiller group) wins the 2020 Faculty of Science's Annual Thesis Award 26.03.2020 Michael Krauthammer shares his vision on using AI to generate medical evidence from real world health data in UZH magazine 03.03.2020 The Bodenmiller group publishes their review on profiling cell signaling networks at single-cell resolution 17.02.2020 The Bodenmiller group publishes their work linking imaging mass cytometry to breast cancer genomics 21.01.2020 The Kümmerli group publishes their review on harnessing bacterial interactions to manage infections 20.01.2020 The Bodenmiller group publishes their work on the single-cell pathology landscape of breast cancer 13.01.2020 The Bodenmiller group, in collaboration with the Krishnaswamy group, publishes a method to uncover axes of variation among single-cell cancer specimens 19.12.2019 DQBM's roundup of 2019 10.12.2019 Bernd Bodenmiller awarded ERC Consolidator Grant 03.12.2019 Julien Weber (Polymenidou group) wins Best Lab Manager Award 2019 26.11.2019 The Kümmerli group shows that homogeneous rather than specialised bacterial behavioral repertoires prevail in natural Pseudomonas communities 20.11.2019 The Kümmerli group publishes their review on bacterial siderophores in community and host interactions 18.10.2019 Bernd Bodenmiller selected for the Analytical Scientist's 2019 Power List Top 100 02.10.2019 The Kümmerli group publishes their work on genetic constraints of siderophore cooperation exploitation in Burkholderia cenocepacia 01.10.2019 Magdalini Polymenidou appointed Associate Professor for Biomedicine, in particular Molecular Pathogenesis of Neurodegeneration 26.06.2019 The Krauthammer group publishes their work on neural network-based models versus logistic regression for predicting readmission 06.06.2019 The Bodenmiller group publishes a human kinome- and phosphatome-wide screen revealing overexpression-induced effects on cancer-related signaling 23.05.2019 The Kümmerli group publishes their work on the impact of Pseudomonas aeruginosa social interactions on host colonization 15.04.2019 The Bodenmiller group finds that breast cancer ecosystems are linked to poor prognosis and immunosuppression. 13.04.2019 The Polymenidou group publishes their work on RNA binding of FUS 28.02.2019 The Polymenidou group publishes their work on TDP-43 strains 25.02.2019 Bernd Bodenmiller receives Friedrich Miescher Award 25.02.2019 The Department of Quantitative Biomedicine has been founded!