Bioinformatics Software
The Center for Translational Science Activities (CTSA) and the Division of Biomedical Statistics and Informatics at Mayo Clinic collaborate to offer a series of classroom-based professional development courses on bioinformatics software. These courses are taught by Alexey A. Leontovich, Ph.D., of Mayo Clinic in Rochester, Minn., who also oversees bioinformatics consulting in the CTSA.
These courses are intended for researchers who want to learn about the technologies available in the Medical Genome Facility (formerly the Advanced Genomics Technology Center) at Mayo Clinic and receive hands-on training on commercial and public bioinformatics software, public bioinformatics databases and genome browsers.
Effective use of bioinformatics software enables researchers to study — on a genome-wide scale — gene expression, exon composition of transcripts, protein binding sites, genotypes, gene copy number variations, DNA methylation and other molecular events.
CME: College of Medicine, Mayo Clinic, designates this educational activity for a maximum of two AMA PRA Category 1 Credits.
Upcoming courses
Note: Registration links on this page require users to be logged in to the Mayo network.
"Key Principles and Features of Affymetrix Microarray Technology"
- Oct. 18, 2012
- High-throughput microarray technologies enable researchers to study gene expression, exon composition of transcripts, protein binding sites, SNPs, gene copy number variations and other molecular events on the genome-wide scale. Although there are multiple platforms implementing this technology, there are a number of key principles that are critical for understanding its potential as well as its limits. This lecture explains key principles and features of Affymetrix microarray technology.
- Time and location: 1-3 p.m., Siebens 4-06 (Grumman Lecture Hall), Rochester
- Mayo Clinic employees: Register now
"Key Principles and Features of Illumina Microarray Technology"
- Oct. 25, 2012
- Illumina microarray technology has proven to be one of the best platforms for gene expression profiling, microRNA and DNA methylation profiling, and SNP detection. This lecture explains key principles and features of Illumina microarray technology and provides background information for learning how to analyze Illumina data.
- Time and location: 1-3 p.m., Plummer 3-25A, Rochester
- Mayo Clinic employees: Register now
"Obtaining Data From Public Microarray Databases"
- Nov. 1, 2012
- Public microarray databases are online repositories of microarray data of different types (gene expression, exon arrays and SNPs). They are often supplied with some data analysis and/or visualization tools. These databases contain data generated with different microarray platforms, including spotted arrays, Affymetrix, Illumina and Agilent. This course explains how to obtain experimental data from public databases.
- Time and location: 1-3 p.m., Old Marian Hall 3-102, Rochester
- Mayo Clinic employees: Register now
"Introduction to Partek GS Software"
- Nov. 8, 2012
- Partek GS is an excellent software application for the analysis of gene expression, exon composition of transcripts, copy number variation, gene annotation and more. This introductory-level course will cover basic functionalities of the software.
- Time and location: 1-3 p.m., Charter House 1-162, Rochester
- Mayo Clinic employees: Register now
"Using Partek GS Software for Data Analysis and Visualization"
- Nov. 15, 2012
- Partek GS has a wide range of tools for statistical analysis, data mining and data visualization. This course focuses on data analysis and data visualization tools.
- Time and location: 1-3 p.m., Old Marian Hall 3-116, Rochester
- Mayo Clinic employees: Register now
"Gene Copy Number Variation Analysis Using Partek GS Software (Part 1)"
- Nov. 29, 2012
- Partek GS software performs gene copy number variation analysis based on SNP (genotyping) data. Partek uses a genomic segmentation method for finding regions of copy number variation.
- Time and location: 1-3 p.m., Old Marian Hall 3-116, Rochester
- Mayo Clinic employees: Register now
"Gene Copy Number Variation Analysis Using Partek GS Software (Part 2)"
- Dec. 6, 2012
- Major technologies for copy number variation analysis are Affymetrix, Illumina and Agilent. Data analysis of each of them has some specifics. They will be discussed in this tutorial.
- Time and location: 1-3 p.m., Charter House 1-162, Rochester
- Mayo Clinic employees: Register now
"Data Analysis for Next-Generation Sequencing"
- Dec. 13, 2012
- A new generation of non-Sanger-based sequencing technologies enabled novel biological applications. These technologies also present new challenges for data analysis. Partek GS offers an array of tools to find differentially expressed transcripts, find alternatively spliced genes, detect nucleotide variations, find unannotated regions in the genome and more.
- Time and location: 1-3 p.m., Charter House 1-162, Rochester
- Mayo Clinic employees: Register now
"Galaxy: An Open, Web-based Software System for Data-Intensive Biomedical Research"
- Dec. 20, 2012
- Analysis of next-generation sequencing data is very computationally extensive. The primary data analysis requires significant computational resources and specialized software. Galaxy is free Web-based software capable of performing all steps of this analysis.
- Time and location: 1-3 p.m., Charter House 1-162, Rochester
- Mayo Clinic employees: Register now
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