Unlock the Power of Proteomics: Hands-On Training for Scientists
Workshop Overview
This interactive workshop will provide a comprehensive introduction to proteomics, covering fundamental concepts and practical bioinformatics tools for analyzing discovery proteomics datasets. Designed for early-career scientists, graduate students, and researchers, this session will equip you with the essential skills to explore and interpret proteomics data effectively.
What You Will Learn:
✅ Introduction to discovery proteomics and data-independent acquisition (DIA)
✅ Basics of proteomics workflows (sample prep, mass spectrometry, data acquisition)
✅ Hands-on training with bioinformatics tools for proteomics data analysis
✅ Data visualization and interpretation techniques
✅ Real-world applications and case studies
Who Should Attend?
🔬 Early-career scientists and researchers in life sciences
🎓 Graduate students and postdocs interested in proteomics
💻 Researchers looking to integrate bioinformatics into their workflow
Pre-Workshop Requirements
Before attending the workshop, please ensure you have the following resources downloaded and installed:
✅ Zoom (https://zoom.us/download)
✅ DIA-NN 1.9.2 software (https://github.com/vdemichev/DiaNN/releases/tag/1.9.2)
✅ Skyline-daily software (https://skyline.ms/project/home/software/skyline/begin.view)
✅ Cytoscape (https://cytoscape.org/)
✅ The Python notebooks will be provided during the workshop and accessed through Google Colab, so installing Python on your computer is unnecessary. A Gmail account is required to access these resources. Please note that only minimal coding knowledge is needed, as the pipelines are user-friendly and do not require prior programming experience.
Agenda: Thursday and Friday, April 17-18, 2025
1:00 - 4:30 pm
All times are in Pacific Daylight Time (GMT-7)
Webinar via Zoom (Link provided upon registration)
📹 Recordings of the sessions will be made available at the end of each day
📜 An E-Certificate of Completion will be provided at the end of the workshop
| Day | Time | Talk |
|---|---|---|
| Thursday 17 | 1:00 - 1:25 pm | Introduction to Proteomics |
| Thursday 17 | 1:25 - 1:50 pm | Data Independent Acquisition (DIA) and Discovery Proteomics |
| Thursday 17 | 1:50 - 2:00 pm | Q&A |
| Thursday 17 | 2:05 - 2:30 pm | Case Study: Biomarkers for Early Cancer Detection |
| Thursday 17 | 2:30 - 3:20 pm | Upstream Data Processing in DIA-NN and Skyline |
| Thursday 17 | 3:25 - 4:15 pm | Downstream Data Processing in Python-based Pipelines, Visualization, Protein–Protein Interaction Networks, and Interpretation of Results [Part 1] |
| Thursday 17 | 4:15 - 4:30 pm | Q&A |
| Friday 18 | 1:00 - 2:30 pm | Downstream Data Processing in Python-based Pipelines, Visualization, Protein–Protein Interaction Networks, and Interpretation of Results [Part 2] |
| Friday 18 | 2:30 - 2:50 pm | Q&A |
| Friday 18 | 3:00 - 3:50 pm | Overview, Conclusions, and Other Applications |
| Friday 18 | 3:50 - 4:30 pm | Q&A and Final Remarks |
Free 30-Minute Consultation (If Needed)When you register for my workshop, you’ll have the option to book a free 30-minute consultation. If you have specific questions or challenges related to your project, this is your opportunity to get personalized advice to help guide your work.
About the instructor
Omar Arias-Gaguancela, M.Sc, PhD
Postdoctoral Fellow; Institute for Systems Biology, Seattle, WA
PhD; Biochemistry and Molecular Biology, University of North Texas, Denton, TX
M.Sc; Plant Pathology, Oklahoma State University, Stillwater, OK
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