Related papers: BIMS: Biomedical Information Management System
The Mediation Information System Engineering project is currently finishing its second iteration (MISE 2.0). The main objective of this scientific project is to provide any emerging collaborative situation with methods and tools to deploy a…
Background: Increasingly, decision-making in healthcare relies on computer models, be it clinical prediction models at point of care or decision-analytic models at the policymaking level. Given the important role models play in both…
Biips is a software platform for automatic Bayesian inference with interacting particle systems. Biips allows users to define their statistical model in the probabilistic programming BUGS language, as well as to add custom functions or…
The vision of IASIS project is to turn the wave of big biomedical data heading our way into actionable knowledge for decision makers. This is achieved by integrating data from disparate sources, including genomics, electronic health records…
A key goal of bioinformatics is to create database systems and software platforms capable of storing and analysing large sets of biological data. Hundreds of biological databases are now available and provide access to huge amount of…
The identification of reproducible biological patterns from high-dimensional data is a bottleneck for understanding the biology of complex illnesses such as schizophrenia. To address this, we developed a biologically informed, multi-stage…
Twenty-five years ago the desktop computer started becoming ubiquitous in the scientific lab. Researchers were delighted with its ability to both control instrumentation and acquire data on a single system, but they were not completely…
Personal Information Management (PIM) refers to the practice and the study of the activities a person performs in order to acquire or create, store, organize, maintain, retrieve, use, and distribute information in each of its many forms…
Composition is a powerful principle for systems biology, focused on the interfaces, interconnections, and orchestration of distributed processes to enable integrative multiscale simulations. Whereas traditional models focus on the structure…
The number of biomedical image analysis challenges organized per year is steadily increasing. These international competitions have the purpose of benchmarking algorithms on common data sets, typically to identify the best method for a…
Medical imaging informatics is a rapidly growing field that combines the principles of medical imaging and informatics to improve the acquisition, management, and interpretation of medical images. This chapter introduces the basic concepts…
New technologies have enabled the investigation of biology and human health at an unprecedented scale and in multiple dimensions. These dimensions include a myriad of properties describing genome, epigenome, transcriptome, microbiome,…
Efficiency has been a pivotal aspect of the software industry since its inception, as a system that serves the end-user fast, and the service provider cost-efficiently benefits all parties. A database management system (DBMS) is an integral…
A health information system (HIS) is the intersection of between healthcare's business process, and information systems to deliver better healthcare services. The nature of healthcare industry, which is highly influenced by economic,…
Systems biology models are useful models of complex biological systems that may require a large amount of experimental data to fit each model's parameters or to approximate a likelihood function. These models range from a few to thousands…
In hospitals, data are siloed to specific information systems that make the same information available under different modalities such as the different medical imaging exams the patient undergoes (CT scans, MRI, PET, Ultrasound, etc.) and…
Modern research in the life sciences is unthinkable without computational methods for extracting, quantifying and visualizing information derived from biological microscopy imaging data. In the past decade, we observed a dramatic increase…
Biological and biomedical imaging datasets record the constitution, architecture and dynamics of living organisms across several orders of magnitude of space and time. Imaging technologies are now used throughout the life and biomedical…
While developing an information system for the University of Bern, we were faced with two major issues: managing software changes and adapting Business Information Models. Software techniques well-suited to software development teams exist,…
Bio image analysis has recently become one keystone of biological research but biologists tend to get lost in a plethora of available software and the way to adjust available tools to their own image analysis problem. We present BIII,…