Graduate School of health and Medical Sciences

Open Neuroscience Data sets: learn what they are, where they are and how to use them
Provider: Faculty of Health and Medical Sciences

Activity no.: 3698-22-00-00
	Enrollment deadline: 23/03/2022

Date and time	20.04.2022, at: 09:00 - 22.04.2022, at: 17:00
Regular seats	12
Course fee	5,160.00 kr.
Lecturers	Hajime Hirase
ECTS credits	2.40

Contact person	Antonios Asiminas E-mail address: a.asiminas@sund.ku.dk

Enrolment Handling/Course Organiser	PhD administration E-mail address: phdkursus@sund.ku.dk

Aim and content This course is free of charge for PhD students at Danish universities (except Copenhagen Business School), and for PhD students at graduate schools in the other Nordic countries. All other participants must pay the course fee. Anyone can apply for the course, but if you are not a PhD student at a Danish university, you will be placed on the waiting list until enrollment deadline. This also applies to PhD students from Nordic countries. After the enrollment deadline, available seats will be allocated to applicants on the waiting list. Learning objectives A student who has met the objectives of the course will be able to: - Gain insight into Open Science initiatives and more specifically Open datasets - Identify questions that can be addressed with available open data - Search for and explore open datasets - Use Python to access open datasets and - Use Python to analyse data Content Over the recent years, an increasing number of datasets and other resources have become freely available. These come for national and international research initiatives, as well as specific labs and researchers. However, the majority of researchers, are not aware of these resources, or they do not possess the required data analysis skills to make full use of this data treasure trove. This 3-day Introductory course will focus on Open Science and Open Datasets in Neuroscience. Day 1 Through a series of lectures we will provide an overview of open science initiatives and focus on neuroscience data depositories. We will discuss the idea behind open datasets and how can they potentially revolutionize neuroscience research, but also the challenges involved. Short group exercises will aim at helping students to think how they might utilize open datasets in their research. Day 2 While some open datasets can be explored with intuitive graphical interfaces, the vast majority of can only be explored using a programming language. This has been a major stumbling block for the use of open datasets by the wider scientific community. The second day will be a crush course on Python. Using Google Colab as a platform, students will learn the basics of Python programming. This course will involve simple exercises that will get students more confident in loading and manipulating datasets, run some basic analysis and plotting their results. This will prepare the students for the last day of the course. Day 3 Using Allen Brain Institute Neuropixel dataset as an example, the last day will involve a practical walkthrough on how to access data from the Allen BI Neuropixel dataset, how to run some basic analysis and start asking some interesting questions. All materials and additional links for further reading and practice will be made available to students at the end of the course. Participants The course is aimed at PhD students who are primarily experimentalists but would like to learn how to access and analyse open datasets in their research. While the course involves use of Python programming language, programming experience is not required. In fact, we would like to encourage people with no programming experience who would like to learn, to take part in the course. The course is mainly relevant to PhD students specializing in neuroscience, but anyone interested in open science and open datasets can take part. Knowledge of calculus and linear algebra will be highly beneficial. Students should bring their laptops to follow tutorials and exercises. No specific software is needed, but a Gmail account would be need to access the coding platform. Relevance to graduate programmes The course is relevant to PhD students from the following graduate programmes at the Graduate School of Health and Medical Sciences, UCPH: Neuroscience Medical and Molecular Imaging In Vivo Pharmacology and Experimental Animals Language English Form Lectures, short group excercises, tutorials Course director Antonis Asiminas, Postdoctoral Researcher, Center for Translational Neuromedicine, a.asiminas@sund.ku.dk Hajime Hirase, Professor, Center for Translational Neuromedicine, hirase@sund.ku.dk Teachers Antonis Asiminas, Postdoctoral Researcher, Center for Translational Neuromedicine Felix Beinlich, Postdoctoral Researcher, Center for Translational Neuromedicine External (online): Adrien Peyrache, Assistant Professor, McGill University, Canada Dates 20 - 22 April 2022 All days 9:00 – 17:00 Course location Mærsk Tower, Room 7.15.149 Registration Please register before 23 March 2022 Seats to PhD students from other Danish universities will be allocated on a first-come, first-served basis and according to the applicable rules. Applications from other participants will be considered after the last day of enrolment. Note: All applicants are asked to submit invoice details in case of no-show, late cancellation or obligation to pay the course fee (typically non-PhD students). If you are a PhD student, your participation in the course must be in agreement with your principal supervisor.

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