Your Instructors
Most of us are members (or alumni) of the functional genomics lab of Vishwanath Iyer, UT Austin.
- Anna Battenhouse, Associate Research Scientist, Iyer Lab, abattenhouse@utexas.edu
- BA English literature, 1978
- Commercial software development 1982 – 2005
- Joined Iyer Lab 2007 (“retirement career”)
- BS Biochemistry, 2013
- Amelia Weber Hall, Graduate Student, Iyer Lab, ameliahall@utexas.edu
- 5th year Microbiology graduate student
- Laboratory Technician at UT 2007-2010
- BS Molecular Genetics, 2007
- Nathan Abell, Research Assistant, Xhemalce Lab, abell.nathan@gmail.com
- Undergraduate researcher in Iyer Lab 2011-2013
- BS Molecular Biology, UT, 2013
- Research Assistant
- Dakota Derryberry, Graduate Student, Wilke Lab, dakotaz@utexas.edu
- ???
About the Iyer Lab
- Main focus is functional genomics
- large-scale transciptional reprogramming in response to diverse stimuli
- Encode consortium collaborator
- work in human and yeast
- Research methods include
- microarrays
- high-throughput sequencing (since 2007)
- especially ChIP-seq
- also RNA-seq, RIP-seq, MNase-seq ...
- we now have > 1,500 NGS datasets
Goals
- Hands-on, tutorial style – learn by doing
- Cover the NGS tool basics – the first few things you'll do after receiving raw sequences
- Get you comfortable with Linux and TACC – your best "frenemies"
- Make you self sufficient in 4 days to become experts over time
- Show some "best practices" for working with NGS data
Communication
Post its
Green post-it – I'm good at the moment.
Pink post-it – I need a bit of help.
Conventions
Text that you find in courier font refers to a program or file name on a computer.
If you see a block of text like this:
Example code block
ls -h
it means, "type the command ls -h into a terminal window, hit return, and see what happens".
We intend this course to offer as much self-learning as possible. Consequently, you'll find many sections like this - click on the triangle to expand them:
and some sections like this:
