Neuromorphic hardware for sustainable AI data centers. Zenodo, 2024. [PUMA: area_responsibleai topic_lifescience] URL
A multimodal zebrafish developmental atlas reveals the state-transition dynamics of late-vertebrate pluripotent axial progenitors. Cell, (187)23:6742--6759, Elsevier, 2024. [PUMA: topic_lifescience]
Metrics reloaded: recommendations for image analysis validation. Nature methods, (21)2:195--212, Nature Publishing Group US New York, 2024. [PUMA: topic_lifescience]
Gut Analysis Toolbox--automating quantitative analysis of enteric neurons. Journal of Cell Science, (137)20The Company of Biologists, 2024. [PUMA: topic_lifescience]
Zebrahub--Multimodal zebrafish developmental atlas reveals the State-transition dynamics of late-vertebrate pluripotent axial progenitors. BioRxiv, 2023--03, Cold Spring Harbor Laboratory, 2023. [PUMA: topic_lifescience]
Slice2Volume: Fusion of multimodal medical imaging and light microscopy data of irradiation-injured brain tissue in 3D. Radiotherapy and Oncology, (182):109591, Elsevier, 2023. [PUMA: topic_lifescience]
Towards Transparency and Knowledge Exchange in AI- assisted Data Analysis Code Generation. Zenodo, October 2024. [PUMA: unit_transfer topic_language topic_lifescience] URL
A comparative patient-level prediction study in OMOP CDM: applicative potential and insights from synthetic data. Scientific reports, (14)1Nature Publishing Group, Jan 27, 2024. [PUMA: Databases, Electronic FIS_scads Factual, Health Humans, Informatics, Learning, Machine Medical Records topic_lifescience]
Automated quantification of photoreceptor outer segments in developing and degenerating retinas on microscopy images across scales. FRONTIERS IN MOLECULAR NEUROSCIENCE, (17 (2024))Frontiers Media S.A., May 24, 2024. [PUMA: unit_transfer topic_lifescience FIS_scads imported]
Efficient Raycasting of View-Dependent Piecewise Constant Representations of Volumetric Data. Jun 17, 2022. [PUMA: topic_visualcomputing topic_lifescience FIS_scads Human-centered Visualization Visualization, and computing, concepts paradigms, techniques theory,]
Content-adaptive generation and parallel compositing of volumetric depth images for responsive visualization of large volume data. Jun 29, 2022. [PUMA: topic_visualcomputing topic_lifescience FIS_scads Human-centered Visualization Visualization, and computing, concepts paradigms techniques theory,]
Streamlining intersectoral provision of real-world health data: a service platform for improved clinical research and patient care. Frontiers in medicine, (11):1377209, Frontiers Media S.A., 2024. [PUMA: topic_lifescience FIS_scads imported]
Towards Standardizing Ophthalmic Data for Seamless Interoperability in Eye Care. Studies in health technology and informatics, (317):139--145, IOS Press, Amsterdam u. a., Aug 30, 2024. [PUMA: topic_lifescience Diseases/therapy, Electronic Eye FIS_scads Germany, Health Humans, Information Interoperability/standards, Learning, Level Machine Ophthalmology Records/standards, Seven/standards,]
Leptin deficiency-caused behavioral change - A comparative analysis using EthoVision and DeepLabCut. Frontiers in neuroscience, (17)Frontiers Media S.A., Mar 24, 2023. [PUMA: topic_lifescience Behavioral Deep DeepLabCut, EthoVision, FIS_scads Obesity analysis, learning,]
CCR2 macrophage response determines the functional outcome following cardiomyocyte transplantation. Genome medicine, (15)1BioMed Central, London, Aug 10, 2023. [PUMA: topic_lifescience Animals, C57BL, Cardiac/metabolism, Cell FIS_scads Immunocompromised, Inbred Infarction, Machine Macrophages, Macrophages/metabolism, Mice, Monocytes/metabolism Myocardial Myocytes, Single-cell, infarction, learning, therapy,]
Mimicking clinical trials with synthetic acute myeloid leukemia patients using generative artificial intelligence. npj digital medicine, (7)1Macmillan Publishers Limited, Mar 20, 2024. [PUMA: topic_lifescience FIS_scads imported]
Ten Topics to Get Started in Medical Informatics Research. Journal of Medical Internet Research, (25)JMIR Publications Inc., Jul 24, 2023. [PUMA: topic_lifescience Algorithms, Clinical Curriculum, Digital FIS_scads Germany, Health Humans, Informatics, Interdisciplinary Medical Research clinical communication, data, digital health health, informatics informatics, interdisciplinary medical research]
Artificial Intelligence Reporting Guidelines' Adherence in Nephrology for Improved Research and Clinical Outcomes. Biomedicines, (12)3MDPI, Basel, Mar 7, 2024. [PUMA: topic_lifescience FIS_scads imported]
How to customize common data models for rare diseases: an OMOP-based implementation and lessons learned. Orphanet journal of rare diseases, (19)1BioMed Central, London, Aug 14, 2024. [PUMA: topic_lifescience Diseases FIS_scads Humans, Rare]
Methods Used in the Development of Common Data Models for Health Data: Scoping Review. JMIR medical informatics, (11)JMIR Publications Inc., Aug 3, 2023. [PUMA: topic_lifescience FIS_scads imported]
Synthetic Data Generation in Hematology - Paving the Way for OMOP and FHIR Integration. Studies in health technology and informatics, (316):1472--1476, IOS Press, Amsterdam u. a., Aug 22, 2024. [PUMA: topic_lifescience Acute, Assessment, Care Electronic FIS_scads Health Hematology, Humans, Information Interoperability, Leukemia, Myeloid, Outcome Records,]
Challenges and applications in generative AI for clinical tabular data in physiology. Pflügers Archiv : European journal of physiology, Springer, Berlin u. a., Oct 17, 2024. [PUMA: topic_lifescience FIS_scads imported]
Netrank: network-based approach for biomarker discovery. BMC bioinformatics, (24)1BioMed Central, London, Jul 29, 2023. [PUMA: topic_lifescience Algorithms, Area Biomedical Curve, Disease FIS_scads Gene Humans, Library Progression, Research, Under]
Word-based GWAS harnesses the rich potential of genomic data for E. coli quinolone resistance. Frontiers in microbiology, (14):1276332, Frontiers Media S.A., 2023. [PUMA: topic_lifescience FIS_scads imported]
Diatom adhesive trail proteins acquired by horizontal gene transfer from bacteria serve as primers for marine biofilm formation. New Phytologist, (240)2:770--783, Wiley-Blackwell, Oxford u. a., Aug 7, 2023. [PUMA: topic_lifescience Adhesives/metabolism, Bacteria Biofilms, Diatoms/metabolism, FIS_scads Gene Horizontal, Transfer,]
Is Protein BLAST a thing of the past?. Nature communications, (14)1Nature Publishing Group, Dec 11, 2023. [PUMA: topic_lifescience Databases, FIS_scads Protein, Proteins/genetics]
The Rad52 SSAP superfamily and new insight into homologous recombination. Communications biology, (6)1Springer Nature, Jan 23, 2023. [PUMA: topic_lifescience DNA FIS_scads Homologous Protein/genetics Rad52 Recombination Recombination, Repair and]
Spontaneous flow instabilities of active polar fluids in three dimensions. Physical Review Research, (5)2American Physical Society, College Park, April 2023. [PUMA: topic_lifescience FIS_scads imported]
Inverse Dirichlet weighting enables reliable training of physics informed neural networks. Machine learning: science and technology, (3)1IOP Publishing Ltd., Feb 15, 2022. [PUMA: topic_lifescience ALGORITHM FIS_scads active catastrophic flow forgetting, gradient modeling, multi-objective multi-scale networks, neural physics-informed regularization, training, turbulence,]
STENCIL-NET for equation-free forecasting from data. Scientific reports, (13)1Nature Publishing Group, December 2023. [PUMA: topic_lifescience FIS_scads imported]
A numerical solver for active hydrodynamics in three dimensions and its application to active turbulence. Physics of fluids, (35)10American Institute of Physics, Oct 1, 2023. [PUMA: topic_lifescience FIS_scads imported]
A Unifying Mathematical Definition of Particle Methods. IEEE open journal of the computer society : an open access publication of the IEEE Computer Society, (4):97--108, Institute of Electrical and Electronics Engineers Inc., 2023. [PUMA: topic_lifescience Algorithmics, FIS_scads algorithms, definition, engineering formal mesh-free methods, parallelization, particle simulation software]
Learning deterministic hydrodynamic equations from stochastic active particle dynamics. Jan 21, 2022. [PUMA: topic_lifescience FIS_scads cond-mat.soft, cs.LG, physics.data-an]
Parallel Discrete Convolutions on Adaptive Particle Representations of Images. IEEE Transactions on Image Processing, (31):4197--4212, Wiley-IEEE Press, Jan 1, 2022. [PUMA: topic_lifescience Convolution, Data FIS_scads Image Microscopy, Signal processing, reconstruction, resolution resolution, structures,]
A C++ Library for Memory Layout and Performance Portability of Scientific Applications. In Jeremy Singer, Yehia Elkhatib, Dora Blanco Heras, Patrick Diehl, Nick Brown, and Aleksandar Ilic (Eds.), Euro-Par 2022, 109--120, Springer Science and Business Media B.V., Germany, 2023. [PUMA: topic_lifescience C++ FIS_scads GPU, algorithms, generic layout, memory multi-core, performance portability tuples,]
Adaptive weighting of Bayesian physics informed neural networks for multitask and multiscale forward and inverse problems. Journal of computational physics, (491)Academic Press Inc., Oct 15, 2023. [PUMA: topic_lifescience Adaptive Artificial Bayesian Carlo, FIS_scads Hamiltonian Intelligence, Monte Multi-objective Quantification Uncertainty learning, networks, neural physics-informed training, weight]
Stability selection enables robust learning of differential equations from limited noisy data. Proceedings of the Royal Society of London : Series A, Mathematical, physical and engineering sciences, (478)2262Royal Society Publishing, June 2022. [PUMA: topic_lifescience FIS_scads PAR differential equations, learning learning, machine proteins, regression, selection, sparse stability statistical theory]
Genomic events stratifying prognosis of early gastric cancer. Gastric Cancer, 1--12, Springer, 2024. [PUMA: topic_lifescience area_bigdata ep imported]
Targeting adhesion G protein-coupled receptors. Current status and future perspectives. Structure, Elsevier, November 2024. [PUMA: 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]
Adeno-associated virus serotype 2 capsid variants for improved liver-directed gene therapy. Hepatology, (77)3:802--815, LWW, 2023. [PUMA: topic_lifescience imported]
Divergent Pairwise Epistasis in the Context of Unstable Membrane Protein Variants. eLife Sciences Publications, Ltd, December 2023. [PUMA: topic_lifescience imported] URL
Self-supervised machine learning methods for protein design improve sampling, but not the identification of high-fitness variants. Cold Spring Harbor Laboratory, June 2024. [PUMA: topic_lifescience imported] URL
Interpretable deep-learning pKa prediction for small molecule drugs via atomic sensitivity analysis. American Chemical Society (ACS), June 2024. [PUMA: topic_lifescience imported] URL
Biasing AlphaFold2 to predict GPCRs and kinases with user-defined functional or structural properties. Frontiers in Molecular Biosciences, (10)Frontiers Media SA, February 2023. [PUMA: topic_lifescience imported] URL
VUStruct: a compute pipeline for high throughput and personalized structural biology. Cold Spring Harbor Laboratory, August 2024. [PUMA: topic_lifescience imported] URL
Computer-Aided Design and Biological Evaluation of Diazaspirocyclic D4R Antagonists. ACS Chemical Neuroscience, (15)12:2396â2407, American Chemical Society (ACS), June 2024. [PUMA: topic_lifescience imported] URL
Approximating conformational Boltzmann distributions with AlphaFold2 predictions. Cold Spring Harbor Laboratory, August 2023. [PUMA: topic_lifescience imported] URL
Template-free prediction of a new monotopic membrane protein fold and assembly by AlphaFold2. Biophysical Journal, (122)11:2041â2052, Elsevier BV, June 2023. [PUMA: topic_lifescience imported] URL
Template-free prediction of a new monotopic membrane protein fold and oligomeric assembly by Alphafold2. Cold Spring Harbor Laboratory, July 2022. [PUMA: topic_lifescience imported] URL
Benchmarking Peptide Structure Prediction with AlphaFold2. Cold Spring Harbor Laboratory, February 2022. [PUMA: topic_lifescience imported] URL