This workshop will leverage the expertise and facilities of the Indiana University (IU)/JAX Model Organism Development for Evaluation of Late Onset Alzheimer’s Disease (MODEL-AD) Precision Medicine consortium.
This workshop is an introduction to high performance computing using the Jackson Laboratory's computing cluster. The goal of this lesson is to teach novice programmers to use powerful tools and computing resources, and to engage in best practices for using these resources. The emphasis of this workshop is to give attendees a strong foundation in the fundamentals of the bash shell, and to teach best practices for scientific computing. This workshop is only open to Jackson Laboratory employees.
Data Carpentry develops and teaches workshops on the fundamental data skills needed to conduct research. Its target audience is researchers who have little to no prior computational experience, and its lessons are domain specific, building on learners' existing knowledge to enable them to quickly apply skills learned to their own research. Participants will be encouraged to help one another and to apply what they have learned to their own research problems. This workshop teaches data management and analysis for genomics research including: best practices for organization of bioinformatics projects and data, use of command line utilities, use of command line tools to analyze sequence quality and perform variant calling, and connecting to and using cloud computing. This workshop is designed to be taught over two full days of instruction. This lesson assumes no prior experience with the tools covered in the workshop. However, learners are expected to have some familiarity with biological concepts, including nucleotide abbreviations and the concept of genomic variation within a population. Participants should bring their laptops and plan to participate actively. This workshop uses data from a long term evolution experiment published in 2012: Genomic analysis of a key innovation in an experimental Escherichia coli population by Blount ZD, Barrick JE, Davidson CJ, and Lenski RE. (doi: 10.1038/nature11514)
In this intensive 2 1/2 day workshop, participants will be introduced to theory, experimental design, analysis and interpretation of microbial community analysis using genomic data.
Software Carpentry aims to help researchers get their work done in less time and with less pain by teaching them basic research computing skills. This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems. Who: The course is aimed at graduate students and other researchers. You don't need to have any previous knowledge of the tools that will be presented at the workshop. Requirements: Participants must bring a laptop with a Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.) that they have administrative privileges on. They should have a few specific software packages installed (listed below). They are also required to abide by Software Carpentry's Code of Conduct. This lesson is an introduction to programming in Python for people with little or no previous programming experience. It uses plotting as its motivating example, and is designed to be used in both Data Carpentry and Software Carpentry workshops. This lesson references the Jupyter Notebook, but can be taught using a regular Python interpreter as well. Please note that this lesson uses Python 3 rather than Python 2. Prerequisites Learners need to understand what files and directories are, what a working directory is, and how to start a Python interpreter. Learners must install Python before the class starts.
This four-day intensive hands-on workshop is for those wishing to obtain practical training in surgical techniques for the laboratory mouse. In addition to surgical procedures, topics covered include mouse biomethods, anatomy, aseptic technique, suturing and microscope use.
During this one-of-a-kind workshop on mouse stereotaxic surgery, participants will learn how to: use different types of stereotaxic devices, read a Vernier scale, read a brain atlas and define bregma. Hands-on laboratory sessions with your own stereotaxic equipment include animal positioning on the stereotaxic device, intracranial drilling, intracranial injections, CSF collection, brain cannulation into the lateral ventricle as well as bi-lateral brain cannulation.
This course provides training in the theory and practice of maintaining mouse colonies for research. Participants completing this course will obtain a thorough understanding of colony management best practice that incorporates the latest developments and trends in the use of the laboratory mouse in research.
This new intensive hands-on JAX course will provide scientists with the skills and knowledge required for rigorous design, execution, analysis, and reporting of behavioral phenotyping and pharmacology studies in the mouse.
This hands‐on workshop teaches participants to use Assisted Reproductive Technologies (ARTs) to efficiently manage mouse strains. Participants will be taught by leading experts in the field and will obtain the information they need to implement ARTs when they return to their institution.
This workshop provides training in the use of genetically defined laboratory mice as tools for asking questions about gene function and the role of genetics in the biology of cancer. Lectures will be given in the morning by world-renowned scientists, followed by intensive hands-on laboratory sessions. Didactic lectures will reflect current knowledge of modeling cancer in a variety of organ sites and will emphasize common themes in cancer research and modeling.