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DTSTART:20260623T090000Z
DTEND:20260624T170000Z
DESCRIPTION:## Overview\nA protein's 3D structure determines its function\,
  but experimental methods like X-ray crystallography and cryo-EM are slow\
 , expensive\, and can't keep pace with the billions of sequences from mode
 rn genomics. Recent AI-based tools like AlphaFold2 and AlphaFold3 have cha
 nged this\, offering predictions that often reach experimental accuracy. N
 ow many life scientists face a different challenge: knowing how to run the
 se methods effectively and when to trust the results. \n\nThis two-day\, h
 ands-on workshop gives life science researchers practical skills for using
  modern protein structure prediction tools in their own work. Participants
  will learn to run AlphaFold2 via the user-friendly ColabFold interface\, 
 and AlphaFold3 through AlphaFold Server. Beyond just running predictions\,
  participants will learn how to critically evaluate their results using co
 nfidence metrics such as pLDDT\, PAE\, and ipTM\, and how to relate these 
 scores to concrete biological questions. \n\n## Audience\nThis course is d
 esigned for PhD students\, postdoctoral and other researchers in the life 
 sciences from both academia and industry who wish to apply computational s
 tructure prediction to their research but have little to no prior experien
 ce in bioinformatics. \n\n## Learning outcomes\nAt the end of the course\,
  the participants are expected to:\n* Run AlphaFold2 via ColabFold to pred
 ict structures of monomers and protein complexes. \n* Run AlphaFold3 via A
 lphaFold Server to model interactions with DNA\, ligands\, and other molec
 ules. \n* Decide when to use AlphaFold2 or AlphaFold3 for a given biologic
 al question and understand the main limitations of each. \n* Use metrics s
 uch as pLDDT\, PAE\, pTM and ipTM to assess the quality and reliability of
  predicted structures. \n* Visualize and inspect predicted models in SWISS
 -MODEL's Structure Assessment tool to support interpretation of their resu
 lts.  \n\n## Prerequisites\n##### Knowledge / competencies\nThis course is
  designed for beginners.\n##### Technical\nYou are required to bring your 
 own laptop. More instructions will be communicated to the course participa
 nts.\n## Schedule\n\n**Day 1** 9:00 -17:00\n\n**Foundations &amp\; Monomer
 s**\n* Introduction: Protein structure prediction history\, AlphaFold2\, r
 elevant concepts (MSAs\, Evoformer)\, limitations \n* Practical: Protein m
 onomer prediction using AlphaFold2 \n* Practical: Using SWISS-MODEL's Stru
 cture Assessment tool for prediction visualization and introduction into A
 lphaFold Database \n* Interpreting confidence scores \n\n**Day 2** 9:00 -1
 7:00\n\n**Advanced Topics &amp\; Complexes**\n* Practical: Advanced AlphaF
 old2 topics - protein complexes and conformational sampling \n* Introducti
 on to AlphaFold3 \n* Practical: Using AlphaFold3 \n\n\n\n## Application\n\
 nThe registration fees for academics are **200 CHF** and **1000 CHF** for 
 for-profit companies.\n\nWhile participants are registered on a first come
 \, first served basis\, exceptions may be made to ensure diversity and equ
 ity\, which may increase the time before your registration is confirmed.\n
 \nYou will be informed by email of your registration confirmation. Upon re
 ception of the confirmation email\, participants will be asked to confirm 
 attendance by paying the fees within 5 days.\n\nApplications close on *09/
 06/2026*. Deadline for free-of-charge cancellation is set to *09/06/2026*.
  Cancellation after this date will not be reimbursed. Please note that par
 ticipation in SIB courses is subject to our [general conditions](https://w
 ww.sib.swiss/training/terms-and-conditions).\n\n## Venue and Time\nThis co
 urse will take place at the University of Basel.\nThe course will start at
  9:00 CET and end around 17:00 CET.\nPrecise information will be provided 
 to the registered participants in due time.\n\n\n## Additional information
 \nCoordination: Valeria Di Cola\, SIB Training Group.\n\n\nWe will recomme
 nd 0.5 ECTS credits for this course (given a passed exam at the end of the
  course).\n\n\nYou are welcome to register to the SIB courses mailing list
  to be informed of all future courses and workshops\, as well as all impor
 tant deadlines using the form [here](https://lists.sib.swiss/mailman/listi
 nfo/courses).\n\n\nPlease note that participation in SIB courses is subjec
 t to our [general conditions](http://www.sib.swiss/training/terms-and-cond
 itions).\n\n\nSIB abides by the [ELIXIR Code of Conduct](https://elixir-eu
 rope.org/events/code-of-conduct). Participants of SIB courses are also req
 uired to abide by the same code.\n\n\nFor more information\, please contac
 t [training@sib.swiss](mailto://training@sib.swiss).
SUMMARY:AlphaFold for protein structure prediction
URL;VALUE=URI:https://www.sib.swiss/training/course/20250623_ALPHA
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