Library classes

Published: January 16th, 2018

Category: Featured Articles

The Health Science Center Library will offer the following workshops this term, independent of registered coursework and open to all.

Please register at least 24 hours in advance by clicking on the desired workshop link below or at goo.gl/a4FJZL

Analyzing Your Gene with UGENE

Thursday, March 22, 10am-12pm, Communicore Building Room C2-41A

Description:  UGENE is a free bioinformatics software (http://ugene.net/).  In this workshop, we will explore several features of UGENE including tools for gene annotation, sequence similarity search (built in BLAST), the transcription factor binding site search tool and Next Generation Sequence (NGS) analysis tools (demo of variant calling of NGS data will be provided).  A laptop is recommended for this workshop.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=35616

App-y Hour: Mobile Resources for Health

Thursday, February 22, 12:30-1:30pm, Communicore Building Room C2-41A

Looking for high-quality mobile apps to help you in your work? In this session, we will provide brief overviews of a number of mobile apps for clinical work, research, teaching and learning, and productivity.  We will also include tips on how to get mobile access to library-subscribed journals and databases.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=28840

Best Practices for Searching the Health Science Education Literature

Wednesday, March 14, 1-2:30pm, Communicore Building Room C2-3

Have you ever struggled to find health science education related literature or wondered if you’ve done a comprehensive search? If so, this workshop will offer guidance on how to search library and other databases for the purposes of developing a review of the literature or the literature section for education related research studies. Topics include decided on the appropriate databases to search, coverage of education and health science databases, and designing effective search strategies that leverage the strengths of each database.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=35622

Best Practices in Research Data Management

Tuesday, March 13, 11am-12pm, Communicore Building Room C2-41C

Learn practical strategies for best managing your research data. A number of U.S. funding agencies such as the National Science Foundation and the National Institutes of Health require researchers to supply plans for managing research data, called Data Management Plans (DMP), for all new grant proposals. This workshop will provide an overview of the questions to consider when creating a data management plan, with a focus on the DMPTool and tools for sharing your data at the University of Florida (e.g. subject-specific repositories). Topics include metadata and annotation, file formats and organization, storage, backups and security, and data sharing. The workshop is geared toward graduate students, faculty, and researchers.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23444

EndNote

Tuesday, January 30, 11am-12pm, Communicore Building Room C2-3

Thursday, February 22, 1-2pm, Communicore Building Room C2-3

Wednesday, March 28, 12-1pm, Communicore Building Room C2-3

Tuesday, April 17, 1-2pm, Communicore Building Room C2-3

Come and see what you can do with EndNote, a program designed to help you organize your reference citations. You will learn how to create and navigate the EndNote libraries, enter individual citations, and search/retrieve citations from EndNote, as well as how to download citations from PubMed, library catalogs, other databases, and import them into your library. We will learn how to use the ‘Cite While You Write’ toolbar and different ways of inserting citations into your papers for publication. It’s easy to generate a bibliography according to the style of any particular journal! This class focuses on the desktop version of EndNote and addresses some unique features of EndNote Online.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23407

Exploring European Bioinformatics Institute (EBI) tools and databases

Wednesday, January 17, 3:15-4:30pm, Communicore Building Room C2-41A

Thursday, January 18, 10:30-11:45am, Communicore Building Room C2-41A

Thursday, February 22, 10:30-11:45am, Communicore Building Room C2-41A

Tuesday, April 3, 10:30-11:45am, Communicore Building Room C2-41A

This workshop will give us an overview to the tools and databases housed within the European Bioinformatics Institute’s website. These include but not limited to EBI’s genome browser – Ensembl, UniProt – a database for protein sequences, and the Clustal Omega multiple sequence aligner. A laptop is recommended for this workshop.

https://mytraining-ufshands.sumtotal.host/core/pillarRedirect?relyingParty=LM&url=app/management/LMS_ActDetails.aspx%3FActivityId%3D38413%26UserMode%3D0

Having a BLAST – Identifying Sequence Similarities with NCBI

Wednesday, January 10, 3:15-4:30pm, Communicore Building Room C2-41A

Thursday, January 11, 10:30-11:45am, Communicore Building Room C2-41A

Monday, February 12, 10:30-11:45am, Communicore Building Room C2-41C

In this workshop, we will learn to obtain sequence similarity information using NCBI’s BLAST suite.  We will briefly go over the difference between local and global alignments and touch upon some of the logic on how sequence similarities are obtained. A laptop is recommended for this workshop.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=35614

Introduction to CINAHL

Monday, February 19, 10-11am, Communicore Building Room C2-3  

Thursday, April 12, 2-3pm, Communicore Building Room C2-3  

Looking for an introduction to the premier database of nursing and allied health literature? This class introduces you to basic and advanced search options; performing more accurate searches using CINAHL headings; using limits to narrow and refine your search; printing, emailing, and exporting your citations; creating a personal account to store your citations; and finding full-text articles.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23434

Introduction to Genome Browsers:  NCBI

Wednesday, January 10, 2:10-3:15pm, Communicore Building Room C2-41A

In this workshop, we will learn how to navigate the NCBI Gene database to find gene sequence information.  We will discover that NCBI Gene is a one-stop database for many of the molecular biology information for a given gene of interest.  The Gene database links to information on variants, gene expression, mRNA sequence, and protein sequence.  A laptop is recommended for this workshop.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23416

Introduction to Genome Browsers:  Ensembl

Wednesday, January 17, 2:10-3:00pm, Communicore Building Room C2-41A

Thursday, 1 January 18, 9:15-10:15am, Communicore Building Room C2-41A

Tuesday, April 3, 9:15-10:15am, Communicore Building Room C2-41A

In this workshop, we will learn how to navigate Ensembl to find gene sequence information, locate variants, obtain exon coordinates, perform comparative genomics analysis, and download sequences for offline analysis. A laptop is recommended for this workshop.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23416

Introduction to Genome Browsers:  UCSC

Wednesday, January 24, 2:10-3:00pm, C2-41A

Thursday, January 25, 9:15-10:15am, C2-41A

Thursday, March 15, 9:15-10:15am, C2-41A

Tuesday, April 10, 9:15-10:15am, C2-41A

In this workshop, we will learn how to navigate the UCSC Genome Browser to find gene sequence information, locate single nucleotide polymorphisms (SNPs), identify conserved regions, and download sequences for offline analysis.  A laptop is recommended for this workshop.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23416

Introduction to Systematic Reviews

Thursday, February 15, 12-1pm, Communicore Building Room C2-41C

This workshop covers steps in the process of conducting the literature searches that serve as the foundation of a high-quality systematic review. It defines and gives examples of the tasks involved: term harvesting, snowballing, tracking results, identifying/locating relevant grey literature.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23451

Introduction to RNA Folding

Monday, April 9, 9:30-10:45am, Communicore Building Room C2-41A

This seminar/workshop will introduce the concept of RNA folding including the biological purpose of RNA secondary structures. Open source tools used to predict RNA secondary structure will also be introduced (i.e. Vienna). A laptop is recommended for this workshop.

https://mytraining-ufshands.sumtotal.host/core/pillarRedirect?relyingParty=LM&url=app/management/LMS_ActDetails.aspx%3FActivityId%3D38420%26UserMode%3D0

Intro to Critical Appraisal of Randomized Controlled Trials

Wednesday, April 4 & 11, 10-11am, Communicore Building Room C2-41C

This standalone will be presented in two sessions. The first session will include lecture and demonstration, introducing attendees to some tools that can be helpful when critically appraising an article. The second session will use a flipped classroom, group discussion format to critique two articles; attendees will be required to critically read the articles in advance and come to session two prepared to discuss.

https://mytraining-ufshands.sumtotal.host/core/pillarRedirect?relyingParty=LM&url=app%2Fmanagement%2FLMS_ActDetails.aspx%3FActivityId%3D38454%26UserMode%3D0

Medical Terminology

Part 1:  Wednesday, February 7, 2-4pm, Communicore Building Room C2-41A https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23441

Part 2:  Wednesday, February 14, 2-4pm, Communicore Building Room C2-41A https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23442

Part 3:  Wednesday, February 21, 2-4pm, Communicore Building Room C2-41A https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23443

Basics of medical terminology. Key concepts and word building, as well as the basics of body structure, including cells, tissues, organs and body planes will be covered.  Parts 1, 2 and 3 make up a single 6-hour course.  Attendees should plan to attend all three sessions in order to complete the training.

Note: This room has videoconference capabilities.  Please contact the instructor at apomputius@ufl.edu with your IP address well in advance if you want to video conference to your site, so that we can set up videoconferencing.  You will need to make your room arrangements at your site.    

Mendeley: Citation Management for UF and Beyond

Tuesday, February 27, 10-11am, Communicore Building Room C2-3

Do you want a citation management software that will follow you wherever your education and career path take you? Mendeley is a free citation management resource that you can use during your time at UF or anywhere else you may go in the future. In this class, you will learn how to use Mendeley to import references from different databases (or other citation management software!), sort your citations and annotate papers, and insert collected citations directly into your own papers.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=34550

NIH Public Access Policy

Friday, March 2, 11am-12pm, Communicore Building Room C2-41C 

This workshop provides an introduction to the NIH Public Access Policy and demonstrates how to fulfill compliance requirements. We will cover how to use My Bibliography and the NIH Manuscript Submission System and discuss the various approaches of journal publishers towards compliance. Attendees are encouraged to bring their eRA Commons login and a list of their NIH-funded articles along with a mobile laptop or tablet so that they can follow ‘hands-on’.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23452

PubMed

Tuesday, March 20, 11am-12pm, Communicore Building Room C2-3

Thursday, April 26, 12-1pm, Communicore Building Room C2-3

This class will take you step-by-step through effective literature search and save techniques—starting smartly, limiting efficiently without losing “good stuff”, searching for specific info (authors, types of publications, specific journals) and refining your search. Depending on participant interests/needs and time, we may also cover setting up email alerts, transferring to bibliographic software like RefWorks or EndNote, filtering for evidence-based studies, building collections within PubMed or other functions within PubMed.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23437

UNIX Command Line using the Cygwin Terminal

Thursday, April 12, 10:30am-12:30pm, Communicore Building Room C2-41A

Cygwin is a terminal providing a UNIX like command line environment for Windows (https://www.cygwin.com/).  In this workshop, we will learn how to setup Cygwin, the basic Cygwin commands and explore the use of NCBI BLAST in Cygwin.  Many bioinformatics tools are designed for UNIX, so this workshop will be a good introduction for someone who might ultimately make the leap to HiperGator for biomedical research computing. A laptop with Windows is recommended for this workshop (i.e. no Apple OS).

https://mytraining-ufshands.sumtotal.host/core/pillarRedirect?relyingParty=LM&url=app/management/LMS_ActDetails.aspx%3FActivityId%3D38418%26UserMode%3D0

Web of Science

Wednesday, February 14, 12-1pm, Communicore Building Room C2-3  

Compiling a bibliography? Trying to find interdisciplinary materials that fall between the sciences and the social sciences? Then search the Web of Science! Learn keyword and author searching while exploring this database’s ability to move backward and forward through reference lists. Determine what sources were used in writing a given article and what subsequent publications cited that particular article. Find related articles that cite several of the same references in their bibliographies.

https://rod.sumtotalsystems.com/ufshands/app/management/LMS_ActDetails.aspx?UserMode=0&ActivityId=23440