Name: Dialogues in the Midst: Accessing Long Time and Large Length Scales: Coarse-Grained Simulations
Start: 2026-03-27T09:30:00+03:00
End: 2026-03-27T16:00:00+03:00
Location: Sabancı University Altunizade Digital Campus, Istanbul

Dialogues in the Midst: Accessing Long Time and Large Length Scales: Coarse-Grained Simulations

Friday, March 27, 2026 - 9:30 AM

Monday, March 23, 2026
Tuesday, March 24, 2026
Wednesday, March 25, 2026
Thursday, March 26, 2026
Friday, March 27, 2026

9:30 AM Registration
Registration
9:30 AM - 10:00 AM
Room: Classrooms G08-G09
10:00 AM From Atomistic to Coarse-Grained Modeling: Concepts and Motivation - Ozge Sensoy
From Atomistic to Coarse-Grained Modeling: Concepts and Motivation
- Ozge Sensoy
10:00 AM - 10:45 AM
Room: Classrooms G08-G09
10:45 AM Introduction to Martini Force Field and Mapping Strategies - Ozge Sensoy
Introduction to Martini Force Field and Mapping Strategies
- Ozge Sensoy
10:45 AM - 11:15 AM
Room: Classrooms G08-G09
11:15 AM Coffee Break
Coffee Break
11:15 AM - 11:30 AM
Room: Classrooms G08-G09
11:30 AM GROMACS Workflow for Coarse-Grained Simulations - Ozge Sensoy
GROMACS Workflow for Coarse-Grained Simulations
- Ozge Sensoy
11:30 AM - 12:15 PM
Room: Classrooms G08-G09
12:15 PM Introduction to Ligand Parameterization in Martini - Ozge Sensoy
Introduction to Ligand Parameterization in Martini
- Ozge Sensoy
12:15 PM - 12:30 PM
Room: Classrooms G08-G09
12:30 PM Lunch Break
Lunch Break
12:30 PM - 1:30 PM
1:30 PM Hands-on I: System Setup and Running CG Simulations in GROMACS - Iremnur Yalcin (İstanbul Medipol Üniversitesi) Hanife Pekel (İstanbul Medipol Üniversitesi) Dima Amairy (İstanbul Medipol Üniversitesi) Ozge Sensoy Zeynep Nur Cinviz (İstanbul Medipol Üniversitesi )
Hands-on I: System Setup and Running CG Simulations in GROMACS
- Iremnur Yalcin (İstanbul Medipol Üniversitesi)
- Hanife Pekel (İstanbul Medipol Üniversitesi)
- Dima Amairy (İstanbul Medipol Üniversitesi)
- Ozge Sensoy
- Zeynep Nur Cinviz (İstanbul Medipol Üniversitesi )
1:30 PM - 2:30 PM
Room: Classrooms G08-G09
2:30 PM Coffee Break
Coffee Break
2:30 PM - 2:45 PM
Room: Classrooms G08-G09
2:45 PM Hands-on II: Trajectory Analysis and Dynamics Evaluation - Iremnur Yalcin (İstanbul Medipol Üniversitesi) Ozge Sensoy Dima Amairy (İstanbul Medipol Üniversitesi) Hanife Pekel (İstanbul Medipol Üniversitesi) Zeynep Nur Cinviz (İstanbul Medipol Üniversitesi )
Hands-on II: Trajectory Analysis and Dynamics Evaluation
- Iremnur Yalcin (İstanbul Medipol Üniversitesi)
- Ozge Sensoy
- Dima Amairy (İstanbul Medipol Üniversitesi)
- Hanife Pekel (İstanbul Medipol Üniversitesi)
- Zeynep Nur Cinviz (İstanbul Medipol Üniversitesi )
2:45 PM - 3:30 PM
Room: Classrooms G08-G09
3:30 PM Backmapping to Atomistic Resolution and Discussion - Ozge Sensoy Zeynep Nur Cinviz (İstanbul Medipol Üniversitesi ) Iremnur Yalcin (İstanbul Medipol Üniversitesi) Hanife Pekel (İstanbul Medipol Üniversitesi) Dima Amairy (İstanbul Medipol Üniversitesi)
Backmapping to Atomistic Resolution and Discussion
- Ozge Sensoy
- Zeynep Nur Cinviz (İstanbul Medipol Üniversitesi )
- Iremnur Yalcin (İstanbul Medipol Üniversitesi)
- Hanife Pekel (İstanbul Medipol Üniversitesi)
- Dima Amairy (İstanbul Medipol Üniversitesi)
3:30 PM - 4:00 PM
Room: Classrooms G08-G09

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