Short Courses and Workshops


Hopkins faculty, staff, fellows and graduate students, as well as those outside the Hopkins community, are encouraged to join.

Workshops have been scheduled for Spring 2013; please check the list below for dates and times.

To register for courses, please send an email to genomics@jhu.edu containing your name, interests and experience pertaining to the course(s) you are registering.

Review of Genetics for High Throughput Biology
Thursday, April 18th and Thursday, April 23rd from 11AM to 1PM
Cost: $40
Instructor: Sarah Wheelan

Gene expression, DNA organization, protein generation, and other cellular processes are the fundamental phenomena being analyzed using high-throughput techniques such as sequencing, DNA microarrays, and protein arrays. This workshop provides deeper understanding of these mechanisms so that computer scientists, mathematicians, and statisticians can be better informed when analyzing data from these platforms. Material is targeted toward this audience and is intended to be a deep, but not broad, overview.

Email genomics@jhu.edu to register. Remember to include: your name, interests and experience pertaining to the course(s) you are registering.

Statistics and Data Analysis using R -Course
Wednesday and Fridays, April 3, 5, 10, 12, 17, 19, 24, and 26. May 1 and 3. 10:30AM to 1PM
Location: CRBI 2M41/2
Instructors: Luigi Marchionni, Leslie Cope, Rob Scharpf
Requirements: Laptop
Cost: $200

This course package is the best way for individuals to learn about the R computing environment and perform statistical tests, make informative graphs and plots, and manage data within a solid statistical framework.

**Please note the change in course times and room locations. Prior to attending the course, please download R Studio onto your laptop.**

Contact the Johns Hopkins School of Medicine to register. Email genomics@jhu.edu for permission to take the course.

Gene Expression Analysis
May 8, 10 from 10:30AM to 1PM
Location: CRBI 2M41/2
Requirements: Laptop and successful completion of the "Statistics and Data Analysis Using R" course Package.
Cost: $60

This course will cover the basic concepts of genomic
analysis, and is designed for students with a background in biology and/or biostatistics, and interest in basic or clinical/translational research. The goal is to provide a general orientation and pointers to simple and effective methodologies for analyzing genomic data in these
contexts.

Specific topics will include:
Part 1: Read and explore gene expression data (Wednesday, May 30 in SPH Wolfe W2300)
a) measurement technologies, preprocessing, and quality control;
Part 2: Differential gene expression analysis (Friday, June 1 in SPH Wolfe W2033)
a) gene annotation;
b) identification of features associated with phenotypes;
c) analysis by gene sets and pathway

 

Introduction to Unix
Tuesday April 9th and April 16th, 1PM to 2:30PM
Cost: $30
Instructor: Frederick Tan

Understanding the Unix environment and interface is critical to using modern bioinformatics programs. This course will cover the basics of using Unix, including how to find help with any Unix command.

Email genomics@jhu.edu to register. Remember to include: your name, interests and experience pertaining to the course(s) you are registering.

 

Introduction to Web-Based Bioinformatics
Tuesday, April 2, 2PM to 4PM
Location: PCTB, 517
Cost: $20
Instructor: Jonathan Pevsner

This workshop provides an introduction to web-based bioinformatics. Topics include (1) accessing information about proteins and genes, (2) the UCSC genome browser, (3) sequence alignment and analysis, (4) GALAXY, and (5) microarrays. Workshop participants are encouraged to email the speaker (Jonathan Pevsner) with specific research topics of interest which will be incorporated into the workshop.

Email genomics@jhu.edu to register. Remember to include: your name, interests and experience pertaining to the course(s) you are registering.

Introduction to Python
Three, 2 hr sessions
Cost: $60
Instructor: Sarah Wheelan

This workshop is intended for biologist who have high-dimensional datasets and would like to manipulate them (reformatting, sorting, basic calculations) so that they can be submitted to various analytical tools. The students should preferably have in hand a dataset, and are not expected to have any prior programming experience. Students unfamiliar with a Unix environment should take the Introduction to Unix Course.

Email genomics@jhu.edu to register. Remember to include: your name, interests and experience pertaining to the course(s) you are registering.

Algorithms
Cost: $20
Instructor: Sarah Wheelan

This course will cover the basics of programming that can be applied to any interface.

Email genomics@jhu.edu to register. Remember to include: your name, interests and experience pertaining to the course(s) you are registering.

 

High Throughput Biology
Instructors: Sarah Wheelan & Srinivasan (Vasan) Yegnasubramanian
Cost: $20

As high throughput technologies (sequencing, microarrays, and more) grow in popularity, researchers are increasingly interested in what is available and how they can utilize these technologies in their own work. The class will briefly discuss the available technologies and some typical experimental designs, and will open the class to questions about the way technologies are used, how to design experiments, and how the technology may be used to address particular experimental questions.

Email genomics@jhu.edu to register. Remember to include: your name, interests and experience pertaining to the course(s) you are registering.

 

Awk, Sed, and Shell Scripting
 Prerequisite: Familiarity with Unix
One, 3 hour session
Location: TBD
Cost: $30

An introduction to the classic and essential Unix tools.
Requirements: Laptop