Using bioinformatics to shorten your path to discovery and improve patient care
Advaita Bioinformatics - Bioinformatics for the Extraordinary
Thursday, November 30
2:00pm-3:00pm CT
Virtual
Speaker: Sorin Dhraghici, PhD
PhDProgram Director -IIS Division of the National Science Foundation
Professor -Department of Computer Science
Head of the Intelligent Systems and Bioinformatics Laboratory at Wayne State University
Abstract
This talk will discuss some advanced bioinformatics methods and software that can be used to greatly facility the analysis and understanding of high-throughput data. Issues will include drawbacks of commonly used approaches for pathway analysis, a method comparison and benchmarking results, and other issues related to data analysis. The seminar will include live demonstrations on several data sets including the following aspects: i) the identification of significantly affected biological processes and pathways in a given phenotype, ii) identifying putative mechanisms, iii) inferring miRNA activity from mRNA data, iv) identification of biomarkers for a given cancer subtype, v) combining the results of several experiments in a meta-analysis and vi) understanding the differences between respondents and non-respondents in Folfox/Folfiri treatments for colorectal cancer.
Speaker Bio
Dr. Draghici is a Fellow of IEEE, and an editor of IEEE/ACM Transactions on Computational Biology and Bioinformatics, Discoveries Journals, Journal of Biomedicine and Biotechnology, International Journal of Functional Informatics and Personalized Medicine and others. His publications include two books (”Data Analysis Tools for DNA Microarrays and Statistics” and ”Data Analysis for Microarrays using R”), 8 book chapters, and over 150 peer-reviewed journal and conference publications which gathered over 17,000 citations to date. He is also the founder of Advaita Bioinformatics (www.advaitabio.com), a SaaS company providing a cloud-based bioinformatics analysis platform for the analysis and integration of multiple types of omics data.
Ingenuity Pathway Analysis (IPA) Hands-on Workshop
Wednesday, December 20, 2023
8:30am-2:30pm
Location: Hardin Library for Health Sciences - Information Commons East
Agenda:
8:30am-9:00am
- Check-in
- Troubleshoot IPA access (highly encouraged)
- Continental breakfast provided
9:00am-12:00pm
Pathway Analysis on 'Omic Data
- Perform pathway analysis on user’s data
- Dataset format, upload, and pathway/core analysis
- Discover key biological mechanisms, regulators and targets
- Compare different groups (time points, treatments, single cell clusters etc.)
- Activity heatmap for pathways, regulators and biological functions
- Compare contrast activity of pathways, biological functions and regulators
- Discover condition specific biomarkers
- Compare user data with public data
- Analysis Match heatmap
- Generate network using genes, chemicals, and disease of interest even without dataset
- Predict activity of custom network using Molecule Activity Predictor
12:00pm-1:00pm
QIAGEN CLC Genomics Workbench Lunch and Learn - lunch is provided
1:00pm-2:30pm
Mine IPA's rich database for novel discoveries
Users will learn how to:
- Leverage public data
- Easily search and open pathway analyses of public data (GEO, SRA, etc.)
- Study biological mechanisms and discover key regulators/drug targets
- Identify gene signatures and key regulators common across datasets
- Edit, expand, modify, and overlay public data on a network for genes, chemicals and diseases of interest
- Study gene or biomarker expression across different tissues, diseases, cell types and more from public sources
