This lightning talk describes an automated pipline for positron emission tomography (PET) data.
This lesson is the first of three hands-on tutorials as part of the workshop Research Workflows for Collaborative Neuroscience. This tutorial goes over how to visualize data with Scanpy, a scalable toolkit for analyzing single-cell gene expression.
In this third and final hands-on tutorial from the Research Workflows for Collaborative Neuroscience workshop, you will learn about workflow orchestration using open source tools like DataJoint and Flyte.
This is a tutorial on designing a Bayesian inference model to map belief trajectories, with emphasis on gaining familiarity with Hierarchical Gaussian Filters (HGFs).
This lesson corresponds to slides 65-90 of the PDF below.
This talk gives an overview of the Human Brain Project, a 10-year endeavour putting in place a cutting-edge research infrastructure that will allow scientific and industrial researchers to advance our knowledge in the fields of neuroscience, computing, and brain-related medicine.
This lecture gives an introduction to the European Academy of Neurology, its recent achievements and ambitions.
This tutorial introduces pipelines and methods to compute brain connectomes from fMRI data. With corresponding code and repositories, participants can follow along and learn how to programmatically preprocess, curate, and analyze functional and structural brain data to produce connectivity matrices.
This lecture highlights the importance of correct annotation and assignment of location, and updated atlas resources to avoid errors in navigation and data interpretation.
We are at the exciting technological stage where it has become feasible to represent the anatomy of an entire human brain at the cellular level. This lecture discusses how neuroanatomy in the 21st Century has become an effort towards the virtualization and standardization of brain tissue.
This lecture covers essential features of digital brain models for neuroinformatics, particularly NeuroMaps.
This presentation covers the neuroinformatics tools and techniques used and their relationship to neuroanatomy for the Allen Institute's atlases of the mouse, developing mouse, and mouse connectional atlas.
This lecture explains the concept of federated analysis in the context of medical data, associated challenges. The lecture also presents an example of hospital federations via the Medical Informatics Platform.
This is a hands-on tutorial on PLINK, the open source whole genome association analysis toolset. The aims of this tutorial are to teach users how to perform basic quality control on genetic datasets, as well as to identify and understand GWAS summary statistics.
This is a tutorial on using the open-source software PRSice to calculate a set of polygenic risk scores (PRS) for a study sample. Users will also learn how to read PRS into R, visualize distributions, and perform basic association analyses.
This lesson is an overview of transcriptomics, from fundamental concepts of the central dogma and RNA sequencing at the single-cell level, to how genetic expression underlies diversity in cell phenotypes.
This is a tutorial introducing participants to the basics of RNA-sequencing data and how to analyze its features using Seurat.
This tutorial demonstrates how to perform cell-type deconvolution in order to estimate how proportions of cell-types in the brain change in response to various conditions. While these techniques may be useful in addressing a wide range of scientific questions, this tutorial will focus on the cellular changes associated with major depression (MDD).
This is a tutorial on how to simulate neuronal spiking in brain microcircuit models, as well as how to analyze, plot, and visualize the corresponding data.
In this session the Medical Informatics Platform (MIP) federated analytics is presented. The current and future analytical tools implemented in the MIP will be detailed along with the constructs, tools, processes, and restrictions that formulate the solution provided. MIP is a platform providing advanced federated analytics for diagnosis and research in clinical neuroscience research. It is targeting clinicians, clinical scientists and clinical data scientists. It is designed to help adopt advanced analytics, explore harmonized medical data of neuroimaging, neurophysiological and medical records as well as research cohort datasets, without transferring original clinical data. It can be perceived as a virtual database that seamlessly presents aggregated data from distributed sources, provides access and analyze imaging and clinical data, securely stored in hospitals, research archives and public databases. It leverages and re-uses decentralized patient data and research cohort datasets, without transferring original data. Integrated statistical analysis tools and machine learning algorithms are exposed over harmonized, federated medical data.
The Medical Informatics Platform (MIP) is a platform providing federated analytics for diagnosis and research in clinical neuroscience research. The federated analytics is possible thanks to a distributed engine that executes computations and transfers information between the members of the federation (hospital nodes). In this talk the speaker will describe the process of designing and implementing new analytical tools, i.e. statistical and machine learning algorithms. Mr. Sakellariou will further describe the environment in which these federated algorithms run, the challenges and the available tools, the principles that guide its design and the followed general methodology for each new algorithm. One of the most important challenges which are faced is to design these tools in a way that does not compromise the privacy of the clinical data involved. The speaker will show how to address the main questions when designing such algorithms: how to decompose and distribute the computations and what kind of information to exchange between nodes, in order to comply with the privacy constraint mentioned above. Finally, also the subject of validating these federated algorithms will be briefly touched.