GlyGen Internships/GlyGen-CFDE Summer 2024 Orientation Schedule
2024 GlyGen-CFDE Internship Orientation Schedule
| Day 1 | Topic | Presenter |
| Ross 529 Monday June 3
8-9 am |
Meet and greet (coffee, bagels)
• Introduce ourselves • Interns introduce themselves, background, goals of internship • GW Orientation |
Mindy
Vishal |
| 9-12
(10 min break each hour) |
Introduction to Glycobiology
• Overview of glycans and their importance in biological processes. • Glycan types, nomenclature, linkage, monosaccharide SNFG • Glycosylation’s impact on protein function. • N- and O-linked glycosylation pathways. • Role of glycosylation in protein folding and stability. |
Mike |
| 12-1:30 | Lunch provided all together 12 people | |
|
1:30-4:20 (10 min break each hour) |
Glycobiology in Health and Disease, General Background
• Glycans as cell surface markers. Blood type, fertilization, • Glycobiology in cancer, immune response, stem cells, and infectious diseases. • Glycans as diagnostics/biomarkers. • Monoclonal antibodies and other therapeutics. • Vaccines |
Mike |
| 4:30-5:30 | Hands on, questions Draw Glycans in Grits | Mindy, Rene, Mike |
| Day 2 | Topic | Presenter |
| Ross 529 Tuesday June 4
8-9 am |
Finish HR stuff (coffee, bagels)
• Introduce Projects overview |
Rene |
| 9-12
(10 min break each hour) |
Glyco in Disease
• Journal club, 1-2 papers • Pancreatic Cancer, • Paper Curation (Mindy) use JC papers as example |
Mike Mindy |
| 12-1:30 | Lunch on your own |
|
1:30-4:20 (10 min break each hour) |
How are Glycans analyzed overview (Mike) General safety training 2-3pm
• Experimental techniques (Mindy) • Types of MS data MS, MS/MS, fragments (Mindy) • Data interpretation (Mindy) • Quantification and limitations (Mike) • Software available (brief intro) (Rene) |
Mike Rene Mindy |
| • Databases and GlyToucan (Rene) | ||
| 4:30-5:30 | Hands on, questions GlyTouCan,
Look at examples of MS Data |
Mindy, Rene, Mike |
| Day 3 | Topic | |
| Ross 529 Wednesday June 5
9-9:15 am |
Meet and greet | Mindy Rene Raja Jeet Sujeet Robel |
| 9:15-12
(10 min break each hour) |
Introduction to Bioinformatics, GlyGen and CFDE
• Introduction to GlyGen (Jeet) • Introduction to CFDE (Jeet) GlyGen under the Hood: Backend • GlyGen Data Processing workflow • GlyGen Datasets • GlyGen APIs • GlyGen SPARQL |
Jeet Robel |
| 12-1:30 | Lunch on your own | |
| 1:30-4:20
(10 min break each hour) |
GlyGen under the Hood: Frontend
• Frontend introduction and architecture • Portal and Features Bioinformatics Big Picture and Inspiration (Raja) |
Sujeet/Rene Robel Raja |
| 4:30-5:30 | Hands on GlyGen Front end | Backend | Sujeet | Robel |
| Day 4 | Topic | Presenter |
| Ross 529 Thursday June 6
9 – 9:15 |
Meet and greet | Mindy Rene Nathan Jeet Daniall |
| 9:15-12
(10 min break each hour) |
More GlyGen Tools for Glycan Exploration
• Sandbox, Gnome, Motifs and subsumption • Intro to curation of data • Pre-Intro to ML |
Nathan |
| Lunch | ||
| 1:30-4:20
(10 min break each hour) |
CFDE Tools and Resources
• CFDE DCCs and Data • Playbook Workflow • Other CFDE tools • Biomarker • Knowledge Graphs |
Jeet Daniall |
| 4:30-5:30 | Hands on GlyGen tools and CFDE tools | Nathan Jeet |
| Day 5 | Topic | Presenter |
| Ross 323 Friday June 7
9 – 9:15 am |
Meet and greet | Sean Urnisha Karina Rene
Mindy |
| 9:15-12
(10 min break each hour) |
Programming
• Programming concepts • Programming languages • Data science and Databases Introduction • Useful tools and environments • Command Line basics |
Sean |
| 12-1:30 | Lunch on your own | |
| 1:30-4:20
(10 min break each hour) |
Machine Learning
• Intro and overview of ML (Urnisha) • ML concepts and Algorithms (Sean) • Data formats for ML (Karina) • ML Projects (Karina, Urnisha) |
Urnisha Karina Sean |
| 4:30-5:30 | Practice programming commands, getting around the work environment | Sean |
| Day 6 | Topic | Presenter |
| Monday
June 10 |
Dive into projects | All including
interns |
| Day 7 | Topic | Presenter |
| Ross 529 Tuesday
June 11 |
Project Discussion | All |
| 9-12 | Each Intern meets to discuss their project in detail for 45 minutes
(need 4 meetings) |
All |
| 12-1:30 | Lunch on your own | |
| 1:30-4:20 | Visit to FDA |