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1Synthetic Data Generation in Hematology - Paving the Way for OMOP and FHIR Integration
W. Hahn, N. Ahmadi, K. Hoffmann, J. Eckardt, M. Sedlmayr, and M. Wolfien. Studies in health technology and informatics, (Aug 22, 2024)Publisher Copyright: © 2024 The Authors..
20 days ago by @scadsfct
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topic_lifescience
Acute,
Assessment,
Care
Electronic
FIS_scads
Health
Hematology,
Humans,
Information
Interoperability,
Leukemia,
Myeloid,
Outcome
Records,
topic_lifescienceAcute,Assessment,CareElectronicFIS_scadsHealthHematology,Humans,InformationInteroperability,Leukemia,Myeloid,OutcomeRecords,
(0)
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1Challenges and applications in generative AI for clinical tabular data in physiology
C. Umesh, M. Mahendra, S. Bej, O. Wolkenhauer, and M. Wolfien. Pflügers Archiv : European journal of physiology, (Oct 17, 2024)© 2024. The Author(s)..
20 days ago by @scadsfct
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1Netrank: network-based approach for biomarker discovery
A. Al-Fatlawi, E. Rusadze, A. Shmelkin, N. Malekian, C. Ozen, C. Pilarsky, and M. Schroeder. BMC bioinformatics, (Jul 29, 2023)Publisher Copyright: © 2023, The Author(s)..
20 days ago by @scadsfct
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topic_lifescience
Algorithms,
Area
Biomedical
Curve,
Disease
FIS_scads
Gene
Humans,
Library
Progression,
Research,
Under
topic_lifescienceAlgorithms,AreaBiomedicalCurve,DiseaseFIS_scadsGeneHumans,LibraryProgression,Research,Under
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1Word-based GWAS harnesses the rich potential of genomic data for E. coli quinolone resistance
N. Malekian, S. Sainath, A. Al-Fatlawi, and M. Schroeder. Frontiers in microbiology, (2023)Copyright © 2023 Malekian, Sainath, Al-Fatlawi and Schroeder..
20 days ago by @scadsfct
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1Diatom adhesive trail proteins acquired by horizontal gene transfer from bacteria serve as primers for marine biofilm formation
J. Zackova Suchanova, G. Bilcke, B. Romanowska, A. Fatlawi, M. Pippel, A. Skeffington, M. Schroeder, W. Vyverman, K. Vandepoele, N. Kröger and 1 other author(s). New Phytologist, 240 (2): 770--783 (Aug 7, 2023)Publisher Copyright: © 2023 The Authors New Phytologist © 2023 New Phytologist Foundation. We acknowledge the support of the Core Facility Mass Spectrometry & Proteomics, Light Microscopy Facility and the Dresden‐concept Genome Center of the Technology Platform of the Center for Molecular and Cellular Bioengineering (CMCB) of the TU Dresden..
20 days ago by @scadsfct
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topic_lifescience
Adhesives/metabolism,
Bacteria
Biofilms,
Diatoms/metabolism,
FIS_scads
Gene
Horizontal,
Transfer,
topic_lifescienceAdhesives/metabolism,BacteriaBiofilms,Diatoms/metabolism,FIS_scadsGeneHorizontal,Transfer,
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1Is Protein BLAST a thing of the past?
A. Al-Fatlawi, M. Menzel, and M. Schroeder. Nature communications, (Dec 11, 2023)
20 days ago by @scadsfct
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topic_lifescience
Databases,
FIS_scads
Protein,
Proteins/genetics
topic_lifescienceDatabases,FIS_scadsProtein,Proteins/genetics
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1The Rad52 SSAP superfamily and new insight into homologous recombination
A. Al-Fatlawi, M. Schroeder, and {. Stewart. Communications biology, (Jan 23, 2023)Funding Information: We gratefully acknowledge support from ZIH of TU Dresden and the BMBF Project scads.ai..
20 days ago by @scadsfct
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topic_lifescience
DNA
FIS_scads
Homologous
Protein/genetics
Rad52
Recombination
Recombination,
Repair
and
topic_lifescienceDNAFIS_scadsHomologousProtein/geneticsRad52RecombinationRecombination,Repairand
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1Spontaneous flow instabilities of active polar fluids in three dimensions
A. Singh, Q. Vagne, F. Jülicher, and {. Sbalzarini. Physical Review Research, (April 2023)Funding Information: Acknowledgments. This work was supported by the Center for Scalable Data Analytics and Artificial Intelligence (ScaDS.AI) Dresden/Leipzig, funded by the Federal Ministry of Education and Research (BMBF, Bundesministerium für Bildung und Forschung). We thank the Scientific Computing Facility of MPI-CBG and the Center for Information Services and High Performance Computing (ZIH) of TU Dresden for providing the compute resources for the numerical simulations. We thank Philipp Suhrcke (Sbalzarini group) and the anonymous referees for their constructive comments. Publisher Copyright: © 2023 authors. Published by the American Physical Society..
20 days ago by @scadsfct
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1Inverse Dirichlet weighting enables reliable training of physics informed neural networks
S. Maddu, D. Sturm, {. Mueller, and {. Sbalzarini. Machine learning: science and technology, (Feb 15, 2022)Funding Information: This work was supported by the German Research Foundation (DFG) – EXC-2068, Cluster of Excellence ‘Physics of Life’, and by the Center for Scalable Data Analytics and Artificial Intelligence (ScaDS.AI) Dresden/Leipzig, funded by the Federal Ministry of Education and Research (BMBF). The present work was also partly funded by the Center for Advanced Systems Understanding (CASUS), which is financed by Germany’s Federal Ministry of Education and Research (BMBF) and by the Saxon Ministry for Science, Culture and Tourism (SMWK) with tax funds on the basis of the budget approved by the Saxon State Parliament. Publisher Copyright: © 2022 The Author(s). Published by IOP Publishing Ltd..
20 days ago by @scadsfct
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topic_lifescience
ALGORITHM
FIS_scads
active
catastrophic
flow
forgetting,
gradient
modeling,
multi-objective
multi-scale
networks,
neural
physics-informed
regularization,
training,
turbulence,
topic_lifescienceALGORITHMFIS_scadsactivecatastrophicflowforgetting,gradientmodeling,multi-objectivemulti-scalenetworks,neuralphysics-informedregularization,training,turbulence,
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1STENCIL-NET for equation-free forecasting from data
S. Maddu, D. Sturm, {. Cheeseman, {. Müller, and {. Sbalzarini. Scientific reports, (December 2023)Publisher Copyright: © 2023, Springer Nature Limited..
20 days ago by @scadsfct
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1A numerical solver for active hydrodynamics in three dimensions and its application to active turbulence
A. Singh, {. Suhrcke, P. Incardona, and {. Sbalzarini. Physics of fluids, (Oct 1, 2023)Publisher Copyright: © 2023 Author(s)..
20 days ago by @scadsfct
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1A Unifying Mathematical Definition of Particle Methods
J. Pahlke, and {. Sbalzarini. IEEE open journal of the computer society : an open access publication of the IEEE Computer Society, (2023)Publisher Copyright: © 2020 IEEE..
20 days ago by @scadsfct
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topic_lifescience
Algorithmics,
FIS_scads
algorithms,
definition,
engineering
formal
mesh-free
methods,
parallelization,
particle
simulation
software
topic_lifescienceAlgorithmics,FIS_scadsalgorithms,definition,engineeringformalmesh-freemethods,parallelization,particlesimulationsoftware
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1Learning deterministic hydrodynamic equations from stochastic active particle dynamics
S. Maddu, Q. Vagne, and {. Sbalzarini. WorkingPaper, (Jan 21, 2022)
20 days ago by @scadsfct
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topic_lifescience
FIS_scads
cond-mat.soft,
cs.LG,
physics.data-an
topic_lifescienceFIS_scadscond-mat.soft,cs.LG,physics.data-an
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1Parallel Discrete Convolutions on Adaptive Particle Representations of Images
J. Jonsson, {. Cheeseman, S. Maddu, K. Gonciarz, and {. Sbalzarini. IEEE Transactions on Image Processing, (Jan 1, 2022)Publisher Copyright: © 1992-2012 IEEE..
20 days ago by @scadsfct
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topic_lifescience
Convolution,
Data
FIS_scads
Image
Microscopy,
Signal
processing,
reconstruction,
resolution
resolution,
structures,
topic_lifescienceConvolution,DataFIS_scadsImageMicroscopy,Signalprocessing,reconstruction,resolutionresolution,structures,
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1A C++ Library for Memory Layout and Performance Portability of Scientific Applications
P. Incardona, A. Gupta, S. Yaskovets, and {. Sbalzarini. Euro-Par 2022, page 109--120. Germany, Springer Science and Business Media B.V., (2023)Publisher Copyright: © 2023, The Author(s), under exclusive license to Springer Nature Switzerland AG.; 28th International European Conference on Parallel and Distributed Computing , Euro-Par 2022 ; Conference date: 22-08-2022 Through 26-08-2022.
20 days ago by @scadsfct
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topic_lifescience
C++
FIS_scads
GPU,
algorithms,
generic
layout,
memory
multi-core,
performance
portability
tuples,
topic_lifescienceC++FIS_scadsGPU,algorithms,genericlayout,memorymulti-core,performanceportabilitytuples,
(0)
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1Adaptive weighting of Bayesian physics informed neural networks for multitask and multiscale forward and inverse problems
S. Perez, S. Maddu, {. Sbalzarini, and P. Poncet. Journal of computational physics, (Oct 15, 2023)Publisher Copyright: © 2023 The Author(s).
20 days ago by @scadsfct
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topic_lifescience
Adaptive
Artificial
Bayesian
Carlo,
FIS_scads
Hamiltonian
Intelligence,
Monte
Multi-objective
Quantification
Uncertainty
learning,
networks,
neural
physics-informed
training,
weight
topic_lifescienceAdaptiveArtificialBayesianCarlo,FIS_scadsHamiltonianIntelligence,MonteMulti-objectiveQuantificationUncertaintylearning,networks,neuralphysics-informedtraining,weight
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1Stability selection enables robust learning of differential equations from limited noisy data
S. Maddu, {. Cheeseman, {. Sbalzarini, and {. Müller. Proceedings of the Royal Society of London : Series A, Mathematical, physical and engineering sciences, (June 2022)Publisher Copyright: © 2022 Royal Society Publishing. All rights reserved..
20 days ago by @scadsfct
show all tags
topic_lifescience
FIS_scads
PAR
differential
equations,
learning
learning,
machine
proteins,
regression,
selection,
sparse
stability
statistical
theory
topic_lifescienceFIS_scadsPARdifferentialequations,learninglearning,machineproteins,regression,selection,sparsestabilitystatisticaltheory
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2Genomic events stratifying prognosis of early gastric cancer
C. Molinari, L. Solaini, F. Rebuzzi, G. Tedaldi, D. Angeli, E. Petracci, D. Prascevic, J. Ewald, E. Rahm, M. Canale and 1 other author(s). Gastric Cancer, (2024)
20 days ago by @scadsfct
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area_bigdata
ep
imported
topic_lifesciencearea_bigdataepimported
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2Targeting adhesion G protein-coupled receptors. Current status and future perspectives
F. Liessmann, L. von Bredow, J. Meiler, and r. Liebscher, Ines. Structure, (November 2024)
20 days ago by @scadsfct
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topic_lifescience
ADGRG1;
ADGRG2;
ADGRG3;
ADGRG5;
ADGRG6;
ADGRG7;
GPCRs;
GPR114;
GPR126;
GPR128;
GPR56;
GPR64;
GPR97;
adhesion
area_bigdata
discovery;
drug
ep
ligands;
molecules;
small
structure
topic_lifescienceADGRG1;ADGRG2;ADGRG3;ADGRG5;ADGRG6;ADGRG7;GPCRs;GPR114;GPR126;GPR128;GPR56;GPR64;GPR97;adhesionarea_bigdatadiscovery;drugepligands;molecules;smallstructure
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1Usefulness of voxel-wise Pearson correlation coefficient for reproducibility and repeatability measurements in PET
R. Haase, K. Zöphel, M. Andreeff, J. Steinbach, J. Kotzerke, and N. Abolmaali. Nuklearmedizin, (2012)
22 days ago by @roha044c
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1Time to upgrade: A new OpenSPIM guide to build and operate advanced OpenSPIM configurations
J. Girstmair, H. Moon, C. Brillard, R. Haase, and P. Tomancak. Advanced biology, 6 (4): 2101182 (2022)
22 days ago by @roha044c
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1Bio-Image Informatics Index BIII: A unique database of image analysis tools and workflows for and by the bioimaging community
C. Zhang, A. Gaignard, M. Kalas, F. Levet, F. Delestro, J. Lindblad, N. Sladoje, L. Plantard, A. Latour, R. Haase and 1 other author(s). arXiv preprint arXiv:2312.11256, (2023)
22 days ago by @roha044c
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1Gliding motility of the diatom Craspedostauros australis correlates with the intracellular movement of raphid-specific myosins
M. Davutoglu, V. Geyer, L. Niese, J. Soltwedel, M. Zoccoler, R. Haase, N. Kroeger, S. Diez, and N. Poulsen. bioRxiv, (2024)
22 days ago by @roha044c
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1Interactive design of GPU-accelerated image data flow graphs and cross-platform deployment using multi-lingual code generation
R. Haase, A. Jain, S. Rigaud, D. Vorkel, P. Rajasekhar, T. Suckert, T. Lambert, J. Nunez-Iglesias, D. Poole, P. Tomancak and 1 other author(s). bioRxiv, (2020)
22 days ago by @roha044c
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1A multimodal zebrafish developmental atlas reveals the state-transition dynamics of late-vertebrate pluripotent axial progenitors
M. Lange, A. Granados, S. VijayKumar, J. Bragantini, S. Ancheta, Y. Kim, S. Santhosh, M. Borja, H. Kobayashi, E. McGeever and 1 other author(s). Cell, 187 (23): 6742--6759 (2024)
22 days ago by @roha044c
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1GPU-accelerating ImageJ Macro image processing workflows using CLIJ
D. Vorkel, and R. Haase. Bioimage Data Analysis Workflows--Advanced Components and Methods, Springer International Publishing Cham, (2022)
22 days ago by @roha044c
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1Slice2Volume: Fusion of multimodal medical imaging and light microscopy data of irradiation-injured brain tissue in 3D
J. Soltwedel, T. Suckert, E. Beyreuther, M. Schneider, M. Boucsein, E. Bodenstein, S. Nexhipi, L. Stolz-Kieslich, M. Krause, C. von Neubeck and 1 other author(s). Radiotherapy and Oncology, (2023)
22 days ago by @roha044c
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1Image processing filters for grids of cells analogous to filters processing grids of pixels
R. Haase. Frontiers in Computer Science, (2021)
22 days ago by @roha044c
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1Dose--volume predictors of early esophageal toxicity in non-small cell lung cancer patients treated with accelerated-hyperfractionated radiotherapy
R. Bütof, S. Löck, M. Soliman, R. Haase, R. Perrin, C. Richter, S. Appold, M. Krause, and M. Baumann. Radiotherapy and Oncology, (2020)
22 days ago by @roha044c
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1Swarm intelligence allows automatic volume analysis basing on low contrast 18 F-fluoromisonidazole-PET of head and neck cancer patients
R. Haase, R. Perrin, K. Zöphel, H. Böhme, N. Abolmaali, and others. European Congress of Radiology-ECR 2013, (2013)
22 days ago by @roha044c
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1Evaluation of a deformable registration algorithm for subsequent lung computed tomography imaging during radiochemotherapy
K. Stützer, R. Haase, F. Lohaus, S. Barczyk, F. Exner, S. Löck, J. Rühaak, B. Lassen-Schmidt, D. Corr, and C. Richter. Medical Physics, 43 (9): 5028--5039 (2016)
22 days ago by @roha044c
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1Analysis of actomyosin dynamics at local cellular and tissue scales using time-lapse movies of cultured drosophila egg chambers
I. Viktorinová, R. Haase, T. Pietzsch, I. Henry, and P. Tomancak. JoVE (Journal of Visualized Experiments), (2019)
22 days ago by @roha044c
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1Optimisation and Validation of a Swarm Intelligence Based Segmentation Algorithm for Low Contrast Positron Emission Tomography
R. Haase. Technische Universität Dresden, (2014)
22 days ago by @roha044c
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1Bat teeth illuminate the diversification of mammalian tooth classes
A. Sadier, N. Anthwal, A. Krause, R. Dessalles, M. Lake, L. Bentolila, R. Haase, N. Nieves, S. Santana, and K. Sears. bioRxiv, (2021)
22 days ago by @roha044c
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1Bat teeth illuminate the diversification of mammalian tooth classes
A. Sadier, N. Anthwal, A. Krause, R. Dessalles, M. Lake, L. Bentolila, R. Haase, N. Nieves, S. Santana, and K. Sears. Nature communications, 14 (1): 4687 (2023)
22 days ago by @roha044c
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1Challenges and opportunities for bioimage analysis core-facilities
J. Soltwedel, and R. Haase. Journal of Microscopy, 294 (3): 338--349 (2024)
22 days ago by @roha044c
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1Benchmarking Large Language Models for Bio-Image Analysis Code Generation
R. Haase, C. Tischer, J. Hériché, and N. Scherf. bioRxiv, (2024)
22 days ago by @roha044c
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1Gliding motility of the diatom Craspedostauros australis coincides with the intracellular movement of raphid-specific myosins
M. Davutoglu, V. Geyer, L. Niese, J. Soltwedel, M. Zoccoler, V. Sabatino, R. Haase, N. Kröger, S. Diez, and N. Poulsen. Communications Biology, 7 (1): 1187 (2024)
22 days ago by @roha044c
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1FDG uptake in normal tissues assessed by PET during treatment has prognostic value for treatment results in head and neck squamous cell carcinomas undergoing radiochemotherapy
S. Zschaeck, S. Löck, S. Leger, R. Haase, A. Bandurska-Luque, S. Appold, J. Kotzerke, D. Zips, C. Richter, V. Gudziol and 1 other author(s). Radiotherapy and Oncology, 122 (3): 437--444 (2017)
22 days ago by @roha044c
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1Image Guided orthotopic Tumor Models in Small Animals
A. Dietrich, R. Buetof, A. Fursov, F. Tillner, S. Loeck, R. Haase, M. Baumann, and M. Krause. STRAHLENTHERAPIE UND ONKOLOGIE, 191, page S24--S25. URBAN & VOGEL NEUMARKTER STRASSE 43, D-81673 MUNICH, GERMANY, (2015)
22 days ago by @roha044c
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1Open microscopy in the life sciences: quo vadis?
J. Hohlbein, B. Diederich, B. Marsikova, E. Reynaud, S. Holden, W. Jahr, R. Haase, and K. Prakash. Nature methods, 19 (9): 1020--1025 (2022)
22 days ago by @roha044c
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1Wie weit bewegen sich die Schwerpunkte hypoxischer Tumorsubvolumina von HNO-Tumoren unter kombinierter Radiochemotherapie.
N. Abolmaali, K. Zöphel, A. Koch, R. Haase, J. Steinbach, and M. Baumann. Nuklearmedizin, (2010)
22 days ago by @roha044c
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1The Fiji Updater, My favorite image analysis tool, by Neubias members
R. Haase. Imaging and Microscopy, (2021)
22 days ago by @roha044c
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1Exogenous ethanol induces a metabolic switch that prolongs the survival of Caenorhabditis elegans dauer larva and enhances its resistance to desiccation
D. Kaptan, S. Penkov, X. Zhang, V. Gade, B. Raghuraman, R. Galli, J. Sampaio, R. Haase, E. Koch, A. Shevchenko and 1 other author(s). Aging Cell, 19 (10): e13214 (2020)
22 days ago by @roha044c
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1Meeting in the middle: towards successful multidisciplinary bioimage analysis collaboration
A. Schlaeppi, W. Adams, R. Haase, J. Huisken, R. MacDonald, K. Eliceiri, and E. Kugler. Frontiers in bioinformatics, (2022)
22 days ago by @roha044c
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1Spatial distribution of FMISO in head and neck squamous cell carcinomas during radio-chemotherapy and its correlation to pattern of failure
S. Zschaeck, R. Haase, N. Abolmaali, R. Perrin, K. Stützer, S. Appold, J. Steinbach, J. Kotzerke, D. Zips, C. Richter and 1 other author(s). Acta Oncologica, 54 (9): 1355--1363 (2015)
22 days ago by @roha044c
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1Stabilität des Hypoxietracers 18 F-FMISO während sequentieller PET-Untersuchungen bei Patienten mit radiochemotherapierten HNO-Tumoren und Korrelation von funktionellen Tumor-Subvolumina zur Rezidivlokalisation
S. Zschaeck, R. Haase, K. Zöphel, N. Abolmaali, R. Perrin, J. Kotzerke, J. Steinbach, D. Zips, M. Krause, and M. Baumann. Strahlentherapie und Onkologie, (2014)
22 days ago by @roha044c
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1On the Reliability of Automatic Volume Delineation in Low-Contrast 18 F FMISO-PET Imaging
R. Haase, M. Andreeff, and N. Abolmaali. Molecular Radio-Oncology, (2016)
22 days ago by @roha044c
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1Fluor-18-Misonidazol-PET/CT unter kurativ intendierter Radiochemotherapie bei Patienten mit lokal fortgeschrittenen Kopf-Hals-Tumoren (KHT)--eine prospektive Explorationsstudie
K. Zöphel, D. Zips, N. Abolmaali, R. Perrin, A. Abramyuk, R. Haase, S. Appold, J. Steinbach, M. Baumann, and J. Kotzerke. Nuklearmedizin, (2013)
22 days ago by @roha044c
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1Prognostic value of baseline 18F-fluorodeoxyglucose positron emission tomography parameters MTV, TLG and asphericity in an international multicenter cohort of nasopharyngeal carcinoma patients
S. Zschaeck, Y. Li, Q. Lin, M. Beck, H. Amthauer, L. Bauersachs, M. Hajiyianni, J. Rogasch, V. Ehrhardt, G. Kalinauskaite and 1 other author(s). PloS one, 15 (7): e0236841 (2020)
22 days ago by @roha044c
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1Self-reproduction versus transition rules in ant colonies for medical volume segmentation
R. Haase, H. Böhme, R. Perrin, K. Zöphel, and N. Abolmaali. International Conference on Swarm Intelligence, page 316--323. Springer Berlin Heidelberg Berlin, Heidelberg, (2012)
22 days ago by @roha044c
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1Physical correction model for automatic correction of intensity non-uniformity in magnetic resonance imaging
S. Leger, S. Löck, V. Hietschold, R. Haase, H. Böhme, and N. Abolmaali. Physics and Imaging in Radiation Oncology, (2017)
22 days ago by @roha044c
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2Towards Transparency and Knowledge Exchange in AI- assisted Data Analysis Code Generation
R. Haase. (October 2024)
22 days ago by @roha044c
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1Gut Analysis Toolbox--automating quantitative analysis of enteric neurons
L. Sorensen, A. Humenick, S. Poon, M. Han, N. Mahdavian, M. Rowe, R. Hamnett, E. Gómez-de Mariscal, P. Neckel, A. Saito and 1 other author(s). Journal of Cell Science, (2024)
22 days ago by @roha044c
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1Influence of deformable Image Registration of PET/CT Data on Signal Values wihin a Contour: Deformation on Contours or Image Data?
R. Haase, F. Lohaus, J. Ruehaak, D. van Straaten, K. Zoephel, and C. Richter. STRAHLENTHERAPIE UND ONKOLOGIE, 190, page 59--59. URBAN & VOGEL, (2014)
22 days ago by @roha044c
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1A new segmentation algorithm for low contrast positron emission tomography based on ant colony optimization
R. Haase, V. Hietschold, M. Andreeff, H. Böhme, and N. Abolmaali. Crossing Borders within the ABC: Automation, Biomedical Engineering and Computer Science, 55, page 505--510. (2010)
22 days ago by @roha044c
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1Virtuelle Ameisen zur Segmentierung von Positronen-Emissions-Tomographie Daten: Auswirkungen auf die Receiver Operating Characteristic
R. Haase, V. Hietschold, M. Andreeff, H. Böhme, and N. Abolmaali. RöFo-Fortschritte auf dem Gebiet der Röntgenstrahlen und der bildgebenden Verfahren, 183, page WI\_PO2. (2011)
22 days ago by @roha044c
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2Two or four hour 18F FMISO-PET in HNSCC
N. Abolmaali, R. Haase, A. Koch, D. Zips, J. Steinbach, M. Baumann, J. Kotzerke, and K. Zöphel. Nuklearmedizin-NuclearMedicine, 50 (01): 22--27 (2011)
22 days ago by @roha044c
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1NanoPyx: super-fast bioimage analysis powered by adaptive machine learning
B. Saraiva, I. Cunha, A. Brito, G. Follain, R. Portela, R. Haase, P. Pereira, G. Jacquemet, and R. Henriques. bioRxiv, (2023)
22 days ago by @roha044c
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1Swarm intelligence for medical volume segmentation: the contribution of self-reproduction
R. Haase, H. Böhme, D. Zips, and N. Abolmaali. KI 2011: Advances in Artificial Intelligence: 34th Annual German Conference on AI, Berlin, Germany, October 4-7, 2011. Proceedings 34, page 111--121. Springer Berlin Heidelberg, (2011)
22 days ago by @roha044c
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1Zebrahub--Multimodal zebrafish developmental atlas reveals the State-transition dynamics of late-vertebrate pluripotent axial progenitors
M. Lange, A. Granados, S. VijayKumar, J. Bragantini, S. Ancheta, S. Santhosh, M. Borja, H. Kobayashi, E. McGeever, A. Solak and 1 other author(s). BioRxiv, (2023)
22 days ago by @roha044c
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1The crucial role of bioimage analysts in scientific research and publication
B. Cimini, P. Bankhead, R. d'Antuono, E. Fazeli, J. Fernandez-Rodriguez, C. Fuster-Barceló, R. Haase, H. Jambor, M. Jones, F. Jug and 1 other author(s). Journal of cell science, (2024)
22 days ago by @roha044c
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2Two or four hour 18F FMISO-PET in HNSCC
R. Haase, A. Koch, D. Zips, J. Steinbach, M. Baumann, J. Kotzerke, K. Zöphel, and N. Abolmaali. Nuklearmedizin, 50 (01): 22--27 (2011)
22 days ago by @roha044c
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1High-precision image-guided proton irradiation of mouse brain sub-volumes
T. Suckert, J. Müller, E. Beyreuther, B. Azadegan, A. Brüggemann, R. Bütof, A. Dietrich, M. Gotz, R. Haase, M. Schürer and 1 other author(s). Radiotherapy and Oncology, (2020)
22 days ago by @roha044c
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1FMISO-PET-based lymph node hypoxia adds to the prognostic value of tumor only hypoxia in HNSCC patients
A. Bandurska-Luque, S. Löck, R. Haase, C. Richter, K. Zöphel, N. Abolmaali, A. Seidlitz, S. Appold, M. Krause, J. Steinbach and 1 other author(s). Radiotherapy and Oncology, (2019)
22 days ago by @roha044c
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1LABKIT: labeling and segmentation toolkit for big image data
M. Arzt, J. Deschamps, C. Schmied, T. Pietzsch, D. Schmidt, P. Tomancak, R. Haase, and F. Jug. Frontiers in computer science, (2022)
22 days ago by @roha044c
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1The prognostic value of FMISO-PET-based synchronous tumor and lymph node hypoxia outperforms that of tumor hypoxia only in patients with advanced stage HNSSC-secondary analysis of Dresden FMISO trail
A. Bandurska-Luque, S. Loeck, R. Haase, C. Richter, K. Zoephel, R. Perrin, A. Seidlitz, S. Zschaeck, S. Appold, M. Krause and 1 other author(s). ONCOLOGY RESEARCH AND TREATMENT, 41, page 186--186. KARGER ALLSCHWILERSTRASSE 10, CH-4009 BASEL, SWITZERLAND, (2018)
22 days ago by @roha044c
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1Timely neurogenesis enables increased nuclear packing order during neuronal lamination
L. Ferme, A. Ryan, R. Haase, C. Modes, and C. Norden. bioRxiv, (2024)
22 days ago by @roha044c
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1Star-convex polyhedra for 3D object detection and segmentation in microscopy
M. Weigert, U. Schmidt, R. Haase, K. Sugawara, and G. Myers. Proceedings of the IEEE/CVF winter conference on applications of computer vision, page 3666--3673. (2020)
22 days ago by @roha044c
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1Metrics reloaded: recommendations for image analysis validation
L. Maier-Hein, A. Reinke, P. Godau, M. Tizabi, F. Buettner, E. Christodoulou, B. Glocker, F. Isensee, J. Kleesiek, M. Kozubek and 1 other author(s). Nature methods, 21 (2): 195--212 (2024)
22 days ago by @roha044c
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1Common limitations of image processing metrics: A picture story
A. Reinke, M. Tizabi, C. Sudre, M. Eisenmann, T. Rädsch, M. Baumgartner, L. Acion, M. Antonelli, T. Arbel, S. Bakas and 1 other author(s). arXiv preprint arXiv:2104.05642, (2021)
22 days ago by @roha044c
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1Automated Quantification of Photoreceptor Outer Segments in Developing and Degenerating Retinas on Microscopic Images across Scales
S. Seidemann, F. Salomon, K. Hoffmann, T. Kurth, I. Sbalzarini, R. Haase, and M. Ader. Investigative Ophthalmology & Visual Science, 65 (7): 5878--5878 (2024)
22 days ago by @roha044c
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1A Call for FAIR and Open-Access Training Materials to advance Bioimage Analysis
R. Haase, C. Tischer, P. Bankhead, K. Miura, and B. Cimini. (2024)
22 days ago by @roha044c
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1A hitchhiker's guide through the bio-image analysis software universe
R. Haase, E. Fazeli, D. Legland, M. Doube, S. Culley, I. Belevich, E. Jokitalo, M. Schorb, A. Klemm, and C. Tischer. Febs Letters, 596 (19): 2472--2485 (2022)
22 days ago by @roha044c
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1Stability of the Hypoxia Tracer 18F-FMISO during sequential PET-Studies in Patients with radio chemotherapy ENT-Tumors and Correlation of functional Tumor-Subvolumes for Recurrence Localization
S. Zschaeck, R. Haase, K. Zophel, N. Abolmaali, R. Perrin, J. Kotzerke, J. Steinbach, D. Zips, M. Krause, and M. Baumann. Strahlentherapie und Onkologie, (2014)
22 days ago by @roha044c
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1Identification of patient benefit from proton therapy for advanced head and neck cancer patients based on individual and subgroup normal tissue complication probability analysis
A. Jakobi, A. Bandurska-Luque, K. Stützer, R. Haase, S. Löck, L. Wack, D. Mönnich, D. Thorwarth, D. Perez, A. Lühr and 1 other author(s). International Journal of Radiation Oncology* Biology* Physics, 92 (5): 1165--1174 (2015)
22 days ago by @roha044c
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1Regionalized tissue fluidization is required for epithelial gap closure during insect gastrulation
A. Jain, V. Ulman, A. Mukherjee, M. Prakash, M. Cuenca, L. Pimpale, S. Münster, R. Haase, K. Panfilio, F. Jug and 1 other author(s). Nature communications, 11 (1): 5604 (2020)
22 days ago by @roha044c
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1EDAM-bioimaging: The ontology of bioimage informatics operations, topics, data, and formats (update 2020)
M. Kalas, L. Plantard, N. Sladoje, J. Lindblad, M. Kirschmann, M. Jones, A. Chessel, L. Scholz, F. Rössler, A. Dufour and 1 other author(s). ELIXIR All Hands 2020, (2020)
22 days ago by @roha044c
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1Zwei oder vier Stunden 18F FMISO-PET in Kopf-Hals-Karzinomen: Wann ist der Bildkontrast am höchsten?
N. Abolmaali, R. Haase, A. Koch, D. Zips, J. Steinbach, M. Baumann, J. Kotzerke, and K. Zöphel. Nuklearmedizin, (2011)
22 days ago by @roha044c
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1CLIJ: GPU-accelerated image processing for everyone
R. Haase, L. Royer, P. Steinbach, D. Schmidt, A. Dibrov, U. Schmidt, M. Weigert, N. Maghelli, P. Tomancak, F. Jug and 1 other author(s). Nature methods, 17 (1): 5--6 (2020)
22 days ago by @roha044c
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1The RNA binding protein human antigen R is a gatekeeper of liver homeostasis
P. Subramanian, S. Gargani, A. Palladini, M. Chatzimike, M. Grzybek, M. Peitzsch, A. Papanastasiou, I. Pyrina, V. Ntafis, B. Gercken and 1 other author(s). Hepatology, 75 (4): 881--897 (2022)
22 days ago by @roha044c
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1NTCP reduction for advanced head and neck cancer patients using proton therapy for complete or sequential boost treatment versus photon therapy
A. Jakobi, K. Stützer, A. Bandurska-Luque, S. Löck, R. Haase, L. Wack, D. Mönnich, D. Thorwarth, D. Perez, A. Lühr and 1 other author(s). Acta Oncologica, 54 (9): 1658--1664 (2015)
22 days ago by @roha044c
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1Highlights from the 2016-2020 NEUBIAS training schools for Bioimage Analysts: a success story and key asset for analysts and life scientists
G. Martins, F. Cordelières, J. Colombelli, R. D’antuono, O. Golani, R. Guiet, R. Haase, A. Klemm, M. Louveaux, P. Paul-Gilloteaux and 1 other author(s). F1000Research, (2021)
22 days ago by @roha044c
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1Segmentation of subsequent FMISO-PET before and during radiochemotherapy: Experts versus swarm intelligence
R. Haase, R. Perrin, K. Zoephel, H. Boehme, and N. Abolmaali. EUROPEAN JOURNAL OF CANCER, 49, page S246--S246. ELSEVIER SCI LTD THE BOULEVARD, LANGFORD LANE, KIDLINGTON, OXFORD OX5 1GB~…, (2013)
22 days ago by @roha044c
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1Exploratory prospective trial of hypoxia-specific PET imaging during radiochemotherapy in patients with locally advanced head-and-neck cancer
D. Zips, K. Zöphel, N. Abolmaali, R. Perrin, A. Abramyuk, R. Haase, S. Appold, J. Steinbach, J. Kotzerke, and M. Baumann. Radiotherapy and Oncology, 105 (1): 21--28 (2012)
22 days ago by @roha044c
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1Precise image-guided irradiation of small animals: a flexible non-profit platform
F. Tillner, P. Thute, S. Löck, A. Dietrich, A. Fursov, R. Haase, M. Lukas, B. Rimarzig, M. Sobiella, M. Krause and 1 other author(s). Physics in Medicine & Biology, 61 (8): 3084 (2016)
22 days ago by @roha044c
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1Correlation between FMISO-PET based hypoxia in the primary tumour and in lymph node metastases in locally advanced HNSCC patients
A. Bandurska-Luque, S. Löck, R. Haase, C. Richter, K. Zöphel, R. Perrin, S. Appold, M. Krause, J. Steinbach, J. Kotzerke and 1 other author(s). Clinical and translational radiation oncology, (2019)
22 days ago by @roha044c
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1Developing open-source software for bioimage analysis: opportunities and challenges
F. Levet, A. Carpenter, K. Eliceiri, A. Kreshuk, P. Bankhead, and R. Haase. F1000Research, (2021)
22 days ago by @roha044c
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1Adeno-associated virus serotype 2 capsid variants for improved liver-directed gene therapy
N. Meumann, M. Cabanes-Creus, M. Ertelt, R. Navarro, J. Lucifora, Q. Yuan, K. Nien-Huber, A. Abdelrahman, X. Vu, L. Zhang and 1 other author(s). Hepatology, 77 (3): 802--815 (2023)
23 days ago by @scadsfct
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1Divergent Pairwise Epistasis in the Context of Unstable Membrane Protein Variants
L. Chamness, C. Kuntz, A. McKee, W. Penn, C. Hemmerich, D. Rusch, H. Woods, Dyotima, J. Meiler, and J. Schlebach. (December 2023)
26 days ago by @scadsfct
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1Self-supervised machine learning methods for protein design improve sampling, but not the identification of high-fitness variants
M. Ertelt, R. Moretti, J. Meiler, and C. Schoeder. (June 2024)
26 days ago by @scadsfct
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1Interpretable deep-learning pKa prediction for small molecule drugs via atomic sensitivity analysis
J. DeCorte, B. Brown, and J. Meiler. (June 2024)
26 days ago by @scadsfct
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1Biasing AlphaFold2 to predict GPCRs and kinases with user-defined functional or structural properties
D. Sala, P. Hildebrand, and J. Meiler. Frontiers in Molecular Biosciences, (February 2023)
26 days ago by @scadsfct
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1VUStruct: a compute pipeline for high throughput and personalized structural biology
C. Moth, J. Sheehan, A. Mamun, R. Sivley, A. Gulsevin, D. Rinker, J. Capra, and J. Meiler. (August 2024)
26 days ago by @scadsfct
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1Computer-Aided Design and Biological Evaluation of Diazaspirocyclic D4R Antagonists
C. Jones, B. Brown, D. Schultz, J. Engers, V. Kramlinger, J. Meiler, and C. Lindsley. ACS Chemical Neuroscience, 15 (12): 2396â2407 (June 2024)
26 days ago by @scadsfct
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1Approximating conformational Boltzmann distributions with AlphaFold2 predictions
B. Brown, R. Stein, J. Meiler, and H. Mchaourab. (August 2023)
26 days ago by @scadsfct
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1Template-free prediction of a new monotopic membrane protein fold and assembly by AlphaFold2
A. Gulsevin, B. Han, J. Porta, H. Mchaourab, J. Meiler, and A. Kenworthy. Biophysical Journal, 122 (11): 2041â2052 (June 2023)
26 days ago by @scadsfct
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1Template-free prediction of a new monotopic membrane protein fold and oligomeric assembly by Alphafold2
A. Gulsevin, B. Han, J. Porta, H. Mchaourab, J. Meiler, and A. Kenworthy. (July 2022)
26 days ago by @scadsfct
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1Benchmarking Peptide Structure Prediction with AlphaFold2
A. Gulsevin, and J. Meiler. (February 2022)
26 days ago by @scadsfct
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1Modeling conformational states of proteins with AlphaFold
D. Sala, F. Engelberger, H. Mchaourab, and J. Meiler. Current Opinion in Structural Biology, (August 2023)
26 days ago by @scadsfct
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