22 results match your criteria: "CISPA Helmholtz Center for Information Security[Affiliation]"
Adv Sci (Weinh)
September 2024
Department of Nutrition and Food Science, College of Agriculture and Natural Resources, University of Maryland, College Park, MD, 20742, USA.
Addressing the critical need for swift and precise nutritional profiling in healthcare and in food industry, this study pioneers the integration of vision-language models (VLMs) with chemical analysis techniques. A cutting-edge VLM is unveiled, utilizing the expansive UMDFood-90k database, to significantly improve the speed and accuracy of nutrient estimation processes. Demonstrating a macro-AUCROC of 0.
View Article and Find Full Text PDFGenome Biol
May 2024
CISPA Helmholtz Center for Information Security, Saarbrücken, Germany.
Background: Gene regulatory network (GRN) models that are formulated as ordinary differential equations (ODEs) can accurately explain temporal gene expression patterns and promise to yield new insights into important cellular processes, disease progression, and intervention design. Learning such gene regulatory ODEs is challenging, since we want to predict the evolution of gene expression in a way that accurately encodes the underlying GRN governing the dynamics and the nonlinear functional relationships between genes. Most widely used ODE estimation methods either impose too many parametric restrictions or are not guided by meaningful biological insights, both of which impede either scalability, explainability, or both.
View Article and Find Full Text PDFEBioMedicine
March 2024
Department of Computer Science, University of Toronto, Canada; Peter Munk Cardiac Centre, University Health Network, Canada; Vector Institute, Toronto, Canada; Department of Laboratory Medicine and Pathobiology, Temerty Faculty of Medicine, University of Toronto, Canada. Electronic address:
Background: Machine Learning (ML) has demonstrated its great potential on medical data analysis. Large datasets collected from diverse sources and settings are essential for ML models in healthcare to achieve better accuracy and generalizability. Sharing data across different healthcare institutions or jurisdictions is challenging because of complex and varying privacy and regulatory requirements.
View Article and Find Full Text PDFAlgorithmica
October 2023
Max Planck Institute for Informatics, Saarland University, Saarbrücken, Germany.
In this paper, we consider a general notion of convolution. Let be a finite domain and let be the set of -length vectors (tuples) of . Let be a function and let be a coordinate-wise application of .
View Article and Find Full Text PDFInnov Syst Softw Eng
July 2022
CISPA Helmholtz Center for Information Security, Saarbrücken, Germany.
Reactive synthesis is the task of automatically deriving a correct implementation from a specification. It is a promising technique for the development of verified programs and hardware. Despite recent advances in terms of algorithms and tools, however, reactive synthesis is still not practical when the specified systems reach a certain bound in size and complexity.
View Article and Find Full Text PDFAlgorithmica
November 2022
Department of Mathematics and Statistics, Dalhousie University, Halifax, NS Canada.
We consider two variants of on graphs. In these games, two players alternate colouring uncoloured vertices (from a choice of colours) of a pair of isomorphic graphs while respecting the properness and the orthogonality of the partial colourings. In the , the first player unable to move loses.
View Article and Find Full Text PDFGenome Biol
March 2023
Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA, USA.
Inference and analysis of gene regulatory networks (GRNs) require software that integrates multi-omic data from various sources. The Network Zoo (netZoo; netzoo.github.
View Article and Find Full Text PDFNucleic Acids Res
February 2023
Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA, USA.
The increasing quantity of multi-omic data, such as methylomic and transcriptomic profiles collected on the same specimen or even on the same cell, provides a unique opportunity to explore the complex interactions that define cell phenotype and govern cellular responses to perturbations. We propose a network approach based on Gaussian Graphical Models (GGMs) that facilitates the joint analysis of paired omics data. This method, called DRAGON (Determining Regulatory Associations using Graphical models on multi-Omic Networks), calibrates its parameters to achieve an optimal trade-off between the network's complexity and estimation accuracy, while explicitly accounting for the characteristics of each of the assessed omics 'layers.
View Article and Find Full Text PDFCrit Rev Food Sci Nutr
May 2024
Department of Nutrition and Food Science, College of Agriculture and Natural Resources, University of Maryland, College Park, Maryland, USA.
Neural network (i.e. deep learning, NN)-based data analysis techniques have been listed as a pivotal opportunity to protect the integrity and safety of the global food supply chain and forecast $11.
View Article and Find Full Text PDFInnov Syst Softw Eng
March 2022
CISPA Helmholtz Center for Information Security, Saarbrücken, Germany.
Synthesis automatically constructs an implementation that satisfies a given logical specification. In this paper, we study the problem, where the synthesized implementation replaces an already running system. In addition to satisfying its own specification, the synthesized implementation must guarantee a sound transition from the previous implementation.
View Article and Find Full Text PDFInnov Syst Softw Eng
April 2022
CISPA Helmholtz Center for Information Security, Saarbrücken, Germany.
In contrast to the breakthroughs in reactive synthesis of monolithic systems, distributed synthesis is not yet practical. Compositional approaches can be a key technique for scalable algorithms. Here, the challenge is to decompose a specification of the global system into local requirements on the individual processes.
View Article and Find Full Text PDFFood Chem
October 2022
U.S. Department of Agriculture, Agricultural Research Service, Beltsville Human Nutrition Research Center, 10300 Baltimore Ave, Bldg. 005, BARC-WEST, Beltsville, MD 20705, USA.
Determining attributes such as classification, creating taxonomies and nutrients for foods can be a challenging and resource-intensive task, albeit important for a better understanding of foods. In this study, a novel dataset, 134 k BFPD, was collected from USDA Branded Food Products Database with modification and labeled with three food taxonomy and nutrient values and became an artificial intelligence (AI) dataset that covered the largest food types to date. Overall, the Multi-Layer Perceptron (MLP)-TF-SE method obtained the highest learning efficiency for food natural language processing tasks using AI, which achieved up to 99% accuracy for food classification and 0.
View Article and Find Full Text PDFNat Methods
May 2022
Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA, USA.
Entropy (Basel)
March 2022
Indian Statistical Institute, Kolkata 700108, India.
The Coefficients H technique (also called the H-technique), developed by Patarin circa 1991, is a tool used to obtain the upper bounds on distinguishing advantages. This tool is known to provide relatively simple and (in some cases) tight bound proofs in comparison to some other well-known tools, such as the game-playing technique and random systems methodology. In this systematization of knowledge (SoK) paper, we aim to provide a brief survey on the H-technique.
View Article and Find Full Text PDFClin Res Cardiol
June 2022
Institute for Cardiomyopathies, Department of Medicine III, University of Heidelberg, Im Neuenheimer Feld 410, 69120, Heidelberg, Germany.
Background: The development of Precision Medicine strategies requires high-dimensional phenotypic and genomic data, both of which are highly privacy-sensitive data types. Conventional data management systems lack the capabilities to sufficiently handle the expected large quantities of such sensitive data in a secure manner. PROMISE is a genetic data management concept that implements a highly secure platform for data exchange while preserving patient interests, privacy, and autonomy.
View Article and Find Full Text PDFNucleic Acids Res
October 2021
Cluster of Excellence for Multimodal Computing and Interaction, Saarland University, Saarland Informatics Campus, 66123 Saarbrücken, Germany.
Understanding how epigenetic variation in non-coding regions is involved in distal gene-expression regulation is an important problem. Regulatory regions can be associated to genes using large-scale datasets of epigenetic and expression data. However, for regions of complex epigenomic signals and enhancers that regulate many genes, it is difficult to understand these associations.
View Article and Find Full Text PDFEXCLI J
July 2021
Systems Medicine, Deutsches Zentrum für Neurodegenerative Erkrankungen (DZNE), Venusberg-Campus 1/99, 53127 Bonn, Germany.
An increasing amount of attention has been geared towards understanding the privacy risks that arise from sharing genomic data of human origin. Most of these efforts have focused on issues in the context of genomic sequence data, but the popularity of techniques for collecting other types of genome-related data has prompted researchers to investigate privacy concerns in a broader genomic context. In this review, we give an overview of different types of genome-associated data, their individual ways of revealing sensitive information, the motivation to share them as well as established and upcoming methods to minimize information leakage.
View Article and Find Full Text PDFDrug efficacy depends on its capacity to permeate across the cell membrane. We consider the prediction of passive drug-membrane permeability coefficients. Beyond the widely recognized correlation with hydrophobicity, we additionally consider the functional relationship between passive permeation and acidity.
View Article and Find Full Text PDFNature
June 2021
Systems Medicine, Deutsches Zentrum für Neurodegenerative Erkrankungen (DZNE), Bonn, Germany.
Fast and reliable detection of patients with severe and heterogeneous illnesses is a major goal of precision medicine. Patients with leukaemia can be identified using machine learning on the basis of their blood transcriptomes. However, there is an increasing divide between what is technically possible and what is allowed, because of privacy legislation.
View Article and Find Full Text PDFNat Commun
September 2020
NOMAD Laboratory, Fritz Haber Institute of the Max Planck Society, Berlin, Germany.
Although machine learning (ML) models promise to substantially accelerate the discovery of novel materials, their performance is often still insufficient to draw reliable conclusions. Improved ML models are therefore actively researched, but their design is currently guided mainly by monitoring the average model test error. This can render different models indistinguishable although their performance differs substantially across materials, or it can make a model appear generally insufficient while it actually works well in specific sub-domains.
View Article and Find Full Text PDFStud Health Technol Inform
June 2020
Chair of Medical Informatics, Friedrich-Alexander-University Erlangen-Nürnberg, Erlangen.
PROMISE (Personal Medical Safe) was a German research project which aimed to provide the responsibility of genomic data to the patient via a mobile app. The patient should accept or decline study requests to use his/her genomic data via the app. In the evaluation of the app the experiences with mobile health as well as the opinion on being the genomic data manager were measured.
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