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Short Courses in Bioinformatics and Biocomputing

Biomolecular Structure Determination by cryo-EM

Member for

3 years 1 month
Full name
Gary Chiang

Transmission Electron Microscopy (TEM) and Cryogenic electron microscopy (cryo-EM) are versatile methods for biological structural characterization. Technological advancements made in the past decade have enabled cryo-EM to become an approachable high-resolution method capable of generating atomic structures.

The course will be divided into three sections: an initial 45-minute section on the room temperature (classical) EM services offered by the core; followed by two sections: an overview of the basic principles of single particle cryo-EM along with the related services our core offers users, split into two approximately one hour sections with breaks between all sections. We will also discuss the practical applications of cryoEM and what a user will need to perform a successful experiment.

Prerequisites:
There are no prerequisites for taking this course.

Course ID
CB27013
Status
Open
Modality
Hybrid, but in person encouraged
Course Closes
Wed, Nov 25
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Wed, Dec 02
9:30 am - 12:30 pm

$10

Introduction to Makerspace

Member for

3 years 1 month
Full name
Gary Chiang

This course provides a beginner-friendly, hands-on introduction to the materials, tools, and equipment available at Hello Maker Studio, the new CNS makerspace. Topics include prototyping with simple materials, digital fabrication, and physical computing with programmable electronics. Participants will complete the studio’s standard 3D printing and laser cutting training, which will allow them to access studio equipment after the course. We will also have dedicated collaboration time to consider ways in which the makerspace could support participants’ research and other areas of interest.

Prerequisites:
There are no prerequisites for taking this course.

Course ID
CB27012
Status
Open
Instructor
Modality
In-person
Course Closes
Wed, Nov 18
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Fri, Nov 20
9:30 am - 12:30 pm

$10

Introduction to TACC

Member for

3 years 1 month
Full name
Gary Chiang

This course provides a gentle introduction to the many resources available at TACC - the Texas Advanced Computing Center. Topics include account setup, requesting an allocation, TACC’s different compute and storage clusters, file system structures and protocols, how to find available software, and working with the TACC batch system. We focus on typical bioinformatics workflow patterns, which are different from those of standard High Performance Computing (HPC), and we provide some useful scripts for bioinformatics analysis support.

Prerequisites:
There are no prerequisites for taking this course.

Course ID
CB27011
Status
Open
Modality
Hybrid (In-person or Zoom)
Course Closes
Fri, Nov 13
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Wed, Nov 18
9:30 am - 12:30 pm

$50

Data Visualization Using R

Member for

3 years 1 month
Full name
Gary Chiang

This course introduces both principles and practice of scientific data visualization, especially as applied to large multivariate data sets. Will cover common methods of visually summarizing data and illustrating relationships between variables of various common types (continuous, categorical, etc.) as well as design concepts for increasing the clarity of quantitative graphical communication. Will introduce modern “grammar of graphics” ideas as foundation for thinking about, relating, and ultimately building new types of informative plots. Implementations of covered methods in R will be presented. Students should bring their own laptops to the course with R and the associated packages dplyr, ggplot2 and pheatmap installed.

Prerequisites:
Some prior knowledge of R is required to get the most out of this class. The “Introduction to R” class would be useful for those not already comfortable with R programming prior to this course.

Course ID
CB27010
Status
Open
Modality
Hybrid, but in-person encouraged
Course Closes
Wed, Nov 11
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Fri, Nov 13
9:30 am - 12:30 pm

$50

Introduction to R

Member for

3 years 1 month
Full name
Gary Chiang

This course will introduce the fundamentals of programming in R. The basic syntax and internal logic of working in R will be covered, with some coverage of Tidyverse tools, if time permits. Topics will include data types, functions, coding style, reading/writing files and basic data manipulation. This course is designed for students with little to no programming experience (prior installation of R is not required). The goal of this course is to get comfortable working with R in RStudio.

Prerequisites:
Students must bring their own laptop with an ability to connect to the UT WiFi network. No prior knowledge of R programming is required.

Course ID
CB27009
Status
Open
Modality
Hybrid, but in-person encouraged
Course Closes
Fri, Nov 06
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Wed, Nov 11
9:30 am - 12:30 pm

$50

Overview of the Biological Mass Spectrometry Facility

Member for

3 years 1 month
Full name
Gary Chiang

The class will be an overview of the Biological Mass Spectrometry Facility covering staff, equipment, services, and collaborative opportunities. Recent acquisitions, new services and opportunities for proteomics and metabolomics experiments will be highlighted.

Prerequisites:
There are no prerequisites for taking this course.

Course ID
CB27008
Status
Open
Modality
Hybrid (In-person or Zoom)
Course Closes
Fri, Oct 30
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Wed, Nov 04
10:00 am - 11:00 am

Free

Introduction to RNA seq

Member for

3 years 1 month
Full name
Gary Chiang

This is a theory course that will introduce some basics (both in experimental design and bioinformatics) that need to be considered when doing an RNA-Seq experiment. We will discuss library prep options, quality assessment, and bioinformatics analysis pipelines. We will also talk about analysis of single-cell and 3′ targeted RNA-Seq data. This course is designed to give you an idea of the options that are available when designing an RNA-Seq study or analyzing an RNA-Seq data set.

Prerequisites:
There are no prerequisites for taking this course.

Course ID
CB27007
Status
Open
Modality
Hybrid (In-person or Zoom)
Course Closes
Fri, Oct 16
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Wed, Oct 21
9:30 am - 12:30 pm

$50

Introduction to Next Generation Sequencing

Member for

3 years 1 month
Full name
Gary Chiang

This course provides a high-level introduction to concepts and best practices for Next Generation Sequencing (NGS) analysis. Participants will gain familiarity with NGS vocabulary and file formats as well as popular tools commonly used in early processing. We will touch on the main skills and resources you need to get started, and aim to help you better understand what it takes to bridge the bench-scientist-to-bioinformatician divide.

Preferred or Prerequisite Skills:
Basic familiarity with DNA and RNA.

Course ID
CB27005
Status
Open
Modality
Hybrid (In-person or Zoom)
Course Closes
Fri, Oct 09
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Wed, Oct 14
9:00 am - 1:00 pm

$50

Python for Machine Learning/AI

Member for

3 years 1 month
Full name
Gary Chiang

Building further on the concepts covered in the Introduction, Intermediate, and Data Science Python courses, we will introduce Python as a tool for training and testing machine learning (ML) models with a particular focus on deep learning approaches. Specific topics will include an introduction to the PyTorch software library and a brief survey of some of the basic model architectures which it implements. Some prior familiarity with the basic ideas of ML (underfitting vs. overfitting, use of training and test data sets, etc.) and/or linear algebra will be helpful for getting the most out of this course.

Prerequisites:
There are no prerequisites for taking this course.

Course ID
CB27004
Status
Open
Modality
Hybrid (In-person or Zoom)
Course Closes
Wed, Oct 21
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Fri, Oct 23
9:30 am - 12:30 pm

$50

Python for Data Science

Member for

3 years 1 month
Full name
Gary Chiang

This course will build up on the concepts covered in the Introduction to Python and Intermediate Python courses. We will introduce the use of Pandas Data frames to read in, subset, analyze and visualize RNA-Seq gene expression data.

Prerequisites:
There are no prerequisites for taking this course.

Course ID
CB27003
Status
Open
Modality
Hybrid, but in-person encouraged
Course Closes
Wed, Oct 14
Procard Disclaimer

If you use the UT ProCard for payment of courses, please be aware that you can only charge ONCE per 24 hour period. Any attempts to charge more courses will fail, and you will not be registered.

For example, you may add one to many courses for one student into your shopping cart at any one time, and charge them to the ProCard, and you should receive a "registration successful!" page at the end. This is because you registered ONCE for ONE student. If you attempt to register and pay again, for example, for a different student, this will trigger the UT ProCard security system to stop payment, and your registration will not be successful. A page stating this fact will occur after you attempt to process payment. It looks a lot like the "registration was successful" page.

Ways to avoid this are: use the ProCard after 24 hours have passed, or the student may use their credit card and be reimbursed later through the usual UT accounting methods, or process the registration with an IDT, otherwise known as an Interdepartmental Transfer (talk to someone in your department that handles the accounts).

Course Semester
Fri, Oct 16
9:30 am - 12:30 pm

$50

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