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Classes at Miner

Classes Upcoming in the Next 30 Days

+ Intro to Mendeley Class

Date: Thursday, May 26, 2016

Time: 10:00am - 11:00am

Location: Miner Classroom 1 (1-6051H)

+ Learning R via SWIRL: Monthly Meet-Up

This is the first in a series of "meet-ups", informal workshops that will introduce participants to the R programming environment through use of an online R teaching tool, the SWIRL (http://swirlstats.com).  SWIRL has multiple modules covering beginner, intermediate and advanced operations in R.  During this session, we will start with some of the basics of programming in R.  Participants will be encouraged to work at their own pace and interact with the organizer and other participants for help and support as they learn.

Over the course of the semester, through monthly sessions, we will work through SWIRL modules on R Programming (basics), Open Intro (very basic introduction to statistics, data analysis, and data visualization), Data Analysis (basic ideas in statistics and data visualization), and Mathematical Biostatistics (one- and two-sample t-tests, power, and sample size).  Sessions are scheduled for the last Friday of each month from 3-5 PM in Miner's Data Visualization Classroom.

NOTE: You may utilize our computers, Microsoft Surface Pro 3 machines running Windows, or bring your own device to the session.  Please install an up-to-date version of R for your computer environment (Mac, Windows or LINUX).  Participants should also install R Studio, a wrap-around that adds functionality to the basic R environment.  Instructions on how to do this can be found on the SWIRL website (http://swirlstats.com/students.html).

Date: Friday, May 27, 2016

Time: 3:00pm - 5:00pm

Location: Miner Classroom 1 (1-6051H)

+ BIO101: The Biology of Cancer

This workshop will discuss cancer at a cellular level, including mechanisms of tumor formation and processes that promote cancer progression.  We’ll also look at modern developments in our understanding of cancer from work done under “big data” and “precision medicine” initiatives.

Date: Friday, June 3, 2016

Time: 12:00pm - 1:00pm

Location: Miner Classroom 1 (1-6051H)

Presenter: Helene McMurray

+ EndNote Basics

Organizing References & Creating Bibliographies
 

In this fast-paced, hands-on class, you'll learn to use the essential features of EndNote bibliographic management software, including creating and managing a database of references, importing references from an online database such as PubMed or Ovid Medline, and creating a manuscript and bibliography with EndNote and Microsoft Word.

  • Can't wait for a class? Try the EndNote tutorials.
  • If our class schedule doesn't fit your schedule, Miner Library staff can schedule a "custom class" for your group.
  • Experienced users in need of a "refresher" or those migrating to EndNote from another bibliographic software program, may find a Housecall more useful.

Contact Linda Hasman (Linda_Hasman@urmc.rochester.edu or 585-275-3399) for more information about EndNote custom classes or Housecalls.

Prerequisites
Basic Computing Skills

Date: Monday, June 6, 2016

Time: 12:00pm - 1:00pm

Location: Miner Classroom 1 (1-6051H)

Presenter: Linda Hasman

+ RefWorks Basics

Date: Tuesday, June 7, 2016

Time: 12:00pm - 1:00pm

Location: Miner Classroom 1 (1-6051H)

+ Blackboard - New Features Review!

This event is being held at the School of Nursing in the 1st Floor Computer Lab (1w216). 

Come and experience new features that will be available in Blackboard beginning with Summer 2016 courses.

  • Student preview - Allows the instructor to navigate the course as a student, including submission of assignments and test.
  • Inline Grading - Allows the instructor to see the assignment submission on-screen and include annotation and mark-up without having to download the file.
  • Delegated Grading - Allows for the instructor to assign grading groups of students to Teaching Assistants or graders within the course.
  • Qwickly - A tool that allows you to email or post an announcement in multiple courses at once.

Date: Wednesday, June 8, 2016

Time: 10:00am - 12:00pm

Location: SON 1w216

Presenter: Joseph Gomulack-Cavicchio

+ Making Sense of Your Gene, Protein or Metabolite List: Secondary Analysis

This course will discuss secondary analysis of high-throughput sequencing data with a focus on RNA-seq. Secondary analysis is done downstream of identification of differentially expressed genes through primary data analysis, and includes clustering and/or principle components analysis to identify patterns in data as well as gene ontology and pathway analysis to identify changes to biological process or signaling pathways indicated by your data. Examples of useful analyses will be drawn from recent scientific papers, with hands-on introduction to various tools that can be used for doing this type of data analysis. NOTE: This is a beginner to intermediate level workshop. We will not be learning command-line programming during this session, although workflows that can be accomplished using R or similar programming environments will be mentioned.

Date: Wednesday, June 8, 2016

Time: 10:00am - 12:00pm

Location: Miner Classroom 1 (1-6051H)

Presenter: Helene McMurray

+ Cancer at the Systems Level

This course will discuss cancer genomics and transcriptomics through the lens of The Cancer Genome Atlas (TCGA) and the International Cancer Genome Consortium (ICGC) projects, with hands on introduction to various databases and tools that can be used for analysis. Examples include cBioPortal, the Cancer Genome Census, COSMIC, the Cancer Cell Line Encyclopedia, the Pan-Cancer Analysis of TCGA data and the Connectivity Map. NOTE: This is a beginner to intermediate level workshop. We will not be learning command-line programming during this session, although workflows that can be accomplished using R or Perl programming will be mentioned.

Date: Monday, June 13, 2016

Time: 10:00am - 12:00pm

Location: Miner Classroom 1 (1-6051H)

Presenter: Helene McMurray

+ Intro to Mendeley Class

Date: Tuesday, June 14, 2016

Time: 9:00am - 10:00am

Location: Miner Classroom 1 (1-6051H)

+ Blackboard Basics for Academic Courses, Clerkships and Residencies

For Coordinators and Directors of Courses, Clerkships, Residencies and Fellowships

You will get guided, hands-on experience with customizing your course, adding/editing content, and adding/removing users from a course. This class is intended for directors and coordinators of courses, clerkships, residencies and fellowships.

 

Date: Tuesday, June 14, 2016

Time: 1:30pm - 3:00pm

Location: Miner Classroom 1 (1-6051H)

Presenter: Tracy Cherry

Use the Right Arrow Button below to see the classes scheduled in the upcoming months. You are welcome to register for any of those upcoming classes.

More Classes Offered by Miner Library

If you are interested in any of these classes, check the next month in the calendar above to see if the class has been scheduled. If not, please click the name of the class below and request that it be offered. You will be contacted by the instructor.

+ An Integrated View of the Genome

This workshop will discuss bioinformatic analysis of the human genome through the lens of the ENCODE and ENCORE projects, with hands-on introduction to various databases and tools that can be used for analysis. Examples include NCBI databases and tools, the UCSC Genome Browser, and the Galaxy program. NOTE: This is a beginner to intermediate level workshop. We will not be learning command-line programming during this session, although workflows that can be accomplished using R or Perl programming will be mentioned.

Prerequisites: Background/experience in biological sciences, basic computer skills

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ Animal Testing Alternatives Searches

Designed to assist investigators with meeting the information requirements of the Animal Welfare Act and the University of Rochester's University Committee on Animal Resources (UCAR). Consult with a Reference Librarian to learn tips for searching your research topic on Medline and other databases. Taught only by appointment. For an appointment, contact Linda Hasman (275-3399).

Prerequisites: Medline searching experience

Supplies: None

Contact Person: Linda Hasman

Contact Email: linda_hasman@urmc.rochester.edu

By Appointment Only

+ BIO101: A Science Primer for the Non-Scientist

This workshop will explore some of the basics of biology, including organization in living organisms (molecules, cells, organ systems, communities of organisms). We will also discuss how scientific knowledge grows and changes, what the process of research is like, and the role of experimentation and evidence in testing ideas in the biological sciences. NOTE: This workshop is intended for those with little or no college-level study in biology, or those who wish to refresh their knowledge of basic biology concepts.

Prerequisites: Basic computer skills

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ BIO101: Big Data and Precision Medicine

This workshop will explore the promise and current realities of so-called precision medicine (a.k.a. personalized medicine) and how “big data” is influencing science and medicine today and into the future.

Prerequisites: Basic computer skills

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ BIO101: Germs and Immunity

This workshop will explore some of the basics of microbiology and immunology, including different kinds of germs (bacteria, fugi and viruses) and the ways in which your immune system works to defend you against these invaders. We will also discuss current issues in microbiology and immunology, such as the rise in antibiotic resistance, food poisoning and the vaccine controversy. NOTE: This workshop is intended for those with little or no college-level study in biology, or those who wish to refresh their knowledge of basic biology concepts.

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ BIO101: What is a Gene, Anyway?

This workshop will explore some of the basics of genetics and molecular biology, including DNA, RNA, protein production and some basics of cell signaling. We will also discuss how malfunction of these processes can lead to cancer and inherited genetic diseases. NOTE: This workshop is intended for those with little or no college-level study in biology, or those who wish to refresh their knowledge of basic biology concepts.

Prerequisites: Basic computer skills

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ BIO101: You Are What You Eat (and Drink and Breathe…)

This workshop will explore some of the basics of cell biology and biochemistry, including metabolism at the cellular level and structural organization of cells. We will also discuss how popular ideas about diet and nutrition relate to the ins and outs of cellular metabolism.

Prerequisites: Basic computer skills

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ Bioinformatics Basics Workshop

This course will discuss bioinformatic analyses in the context of recent scientific papers, with hands-on introduction to various databases and tools that can be used for analysis. Examples include analysis of high-throughput sequence data, gene ontology and pathway analysis, and pattern identification methods such as hierarchical clustering and principle components analysis. NOTE: This is a beginner to intermediate level workshop. We will not be learning command-line programming during this session, although workflows that can be accomplished using R or Perl programming will be mentioned.

Prerequisites: Background/experience in biological sciences, basic computer skills

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ Bioinformatics Guest Lecture Series

This ongoing series of hands-on workshops will cover special topics in bioinformatics, taught by specialists in their fields.

Prerequisites: Background/experience in biological sciences, basic computer skills

Contact Person: Various

Contact Email: helene_mcmurray@urmc.rochester.edu

+ Biostats Boot Camp

Biostats Boot Camp is meant to provide a foundation and/or refresher on basic statistical concepts for anyone working in the Biomedical Sciences. The boot camp will focus on descriptive statistics, including types of data, data representations (tables and several types of graphs), summary measures of data, measures of data dispersion, and basics of probability. We will touch briefly on inferential statistics, such as the t-test, ANOVA, Mann-Whitney test and Wilcoxon signed-rank test. Each session will be conducted in the Teaching and Learning Lab (2-8513) of the Center for Experiential Learning to facilitate practical application of these concepts using the JMP software package. NOTE: Each week of this boot camp builds on the previous. Please plan to attend all five sessions of boot camp.

Contact Person: Helene McMurray, Ph.D.

Contact Email: helene_mcmurray@urmc.rochester.edu

+ Blackboard Feature: Discussion Boards

Discussion Boards, Wikis and Blogs keep the conversation alive, even when students and instructors are not face-to-face. Learn how to create and make the best use of these tools in Blackboard.

Prerequisites: none

Contact Person: Tracy Cherry

Contact Email: tracy_cherry@urmc.rochester.edu

+ Blackboard Features: Groups Feature in Blackboard

Creating and Using Groups in Blackboard

Prerequisites: none

Contact Person: Tracy Cherry

Contact Email: tracy_cherry@urmc.rochester.edu

+ Blackboard Features: Tests and Surveys

Creating and deploying tests and surveys in Blackboard is easy, once you know how. This hands-on class will teach you how to create test/survey questions, deploy a test/survey to activate it, and how to view results and responses from users.

Contact Person: Tracy Cherry

Contact Email: tracy_cherry@urmc.rochester.edu

+ CINAHL: Search Strategies for Nurses

Learn to effectively use CINAHL to help locate literature to support Evidence Based Practice. We will also cover using the PICO formula to search in CINAHL. Perfect for nurses, students in the School of Nursing and anyone who would like a refresher on how to use this database.

Prerequisites: None

Supplies: None

Contact Person: Daniel Trout

Contact Email: daniel_trout@urmc.rochester.edu

+ Data Management

Many major funders, including the National Science Foundation, National Institutes of Health and Centers for Disease Control and Prevention, require a plan for managing data. A Data Management Plan (DMP) is a formal plan that outlines how the data, including both physical and digital, will be handled over the course of the research project and beyond. This class will cover the practical tips and essentials of data management, including: -Data management plans (tools, checklists); -Methods for describing data; -Best practices for file naming; -Data storage and reuse; -Citing data

Contact Person: Linda Hasman

Contact Email: linda_hasman@urmc.rochester.edu

+ EndNote and RefWorks

This class introduces the basic features of bibliographic management (managing a database of references from PubMed or Ovid Medline and creating a manuscript and bibliography) using EndNote and RefWorks. You'll have the opportunity to "test drive" both products to see which is the best fit for you. Please note: the class is designed to be an overview of both products. If you are an experienced user in need of a refresher, you may find a Housecall more useful. Can't wait for a class? Try the RefWorks interactive tutorials or the EndNote tutorials.

Contact Person: Linda Hasman

Contact Email: linda_hasman@urmc.rochester.edu

+ Finding Evidence-based Answers to Clinical Questions

A hands-on class that teaches clinicians how to find evidence-based answers to patient care questions using resources from Miner Library such PubMed@UR, Cochrane Library, UpToDate, and Essential Evidence Plus. Designed for physicians, residents, nurses, physician assistants, and other health professionals involved in patient care. Customized sessions can be scheduled for groups or individuals. Taught by appointment only. Contact Karen Liljequist (273-4869 or karen_liljequist@urmc.rochester.edu) to schedule a session.

Prerequisites: Basic knowledge of PubMed or CINAHL

Supplies: None

Contact Person: Karen Liljequist

Contact Email: karen_liljequist@urmc.rochester.edu

By Appointment Only

+ Library Survival Skills

Do you usually use library resources from your desktop, or here in our physical space? Either way, this class will provide you with the skills to survive and even enjoy your next contact with the library! Learn to better understand citations to books and articles, to use the Voyager catalog, and to find and access electronic books, journals and databases.

Prerequisites: None

Supplies: None

Contact Person: Karen Liljequist

Contact Email: karen_liljequist@urmc.rochester.edu

+ Medline Basics: Via Ovid

Learn to design a search strategy, use subject headings/keywords, refine your search, and use features unique to this interface. This class will be scheduled by appointment.

Prerequisites: None

Supplies: None

Contact Person: Donna Berryman

Contact Email: donna_berryman@urmc.rochester.edu

+ Mendeley: Social Citation Management

Learn about the social citation management software that will help you share your research, share your citations and discover what others are doing. If you have an iPad please bring it to class as we will cover the mobile app.

Supplies: iPad (If you have one)

Contact Person: Daniel Trout

Contact Email: daniel_trout@urmc.rochester.edu

+ Notability Workshop for Medical Students

Want to learn to use all of the fabulous features in Notability? Then, sign up for this workshop and get the most out of this amazing app. It will be helpful to have a Google account set up ahead of time and to know your password. Notability uses Google Drive to convert documents that are not already in PDF form to PDF. Contact the instructor, Tracy Cherry if you need any help getting a Google account set up. See e-mail below.

Prerequisites: Have a Google account and know your password

Supplies: Your iPad with Notability already downloaded

Contact Person: Tracy Cherry

Contact Email: tracy_cherry@urmc.rochester.edu

+ Patient Education Websites

Although over 60 million people search the Web for health information, finding reliable information can be difficult for patients. This class covers about ten reliable consumer health information Websites, including MedlinePlus, that can be used for providing health information to patients. Even if you don't work with patients, these sites can be useful for answering your own or your family's health questions. We will also discuss criteria for evaluating the quality of other health Websites.

Prerequisites: Basic knowledge of the World Wide Web

Supplies: None

Contact Person: Daniel Trout

Contact Email: daniel_trout@urmc.rochester.edu

+ PubMed: Advanced

Want to learn more about how PubMed works and how to use it effectively? Then this hands-on class is for you. We will cover searching with MeSH, doing searches in specific fields using tags, advanced author searching, and more. This class is designed for people who have already learned to use the basic features of the database (Limits, Advanced Search, Clipboard, Send To options) and are ready for the next step.

Contact Person: Donna Berryman

Contact Email: donna_berryman@urmc.rochester.edu

+ PubMed: An Introduction

Whether you are brand new to PubMed or you've started using it recently, this class is for you. In this hands-on class, you'll learn how to navigate PubMed. You will learn the different functions and features of the database including the Send To options, how to apply Limits to your search, how to use the Clipboard, and more! Learn where these features are and what they can do for you. The class will help you get comfortable with the world's premier biomedical database.

Prerequisites: None

Supplies: None

Contact Person: Donna Berryman

Contact Email: donna_berryman@urmc.rochester.edu

+ Using My NCBI

My NCBI, a free feature of PubMed, will allow you to do so many things that will save you time: - Save searches & receive automatic emailed updates of citations new to the database; - Set up Collections to save citations of interest permanently - and share those collections with others, if you choose; - Customize search features in PubMed; - Manage professional bibliographies - particularly important for those who must comply with the NIH Public Access Mandate; - Set up search filters; and, - Much more. This class will help you learn how to set up and use a My NCBI account.

Contact Person: Donna Berryman

Contact Email: donna_berryman@urmc.rochester.edu

+ Who's Citing You?

Would you like to know who is citing your research, or what your H-index is? Have you wondered in which journal to publish for the greatest impact? In this hands-on class, we will explore unique features of Web of Science and Journal Citation Reports. We'll also look at other databases which provide information about who has cited an article. Can't wait for a class? Try the Web of Science tutorials. Contact Donna Berryman (275-6877 or Donna_Berryman@urmc.rochester.edu) with questions or to arrange a class for a group. If our class schedule doesn't fit your schedule, Miner Library staff can schedule a custom class for your group.

Prerequisites: None

Contact Person: Donna Berryman

Contact Phone: 275-6877

Contact Email: donna_berryman@urmc.rochester.edu

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(585)275-3361

Calendar Color Key

Searching Databases
Blackboard
Tenure / Publishing
Bioinformatics
Science Basics
Citation Management
Data Management
Tools / Productivity / Apps