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Capsid Geometrical Anatomy (Luque lab)

November 11, 2021

Zoom session

  • Zoom recording of Parts 2 and 3.
  • Agenda:
    • Part 1: Toni Luque provides an update and vision about the tools that the Luque lab has been developing to predict the structural phenotype of viruses from genomic information.
    • Part 2: Diana Lee leads a demonstration on how to predict the capsid architecture of tailed phages from their genome.
    • Part 3: Diana Lee leads a demonstration on how to predict the capsid architecture of tailed phages from their major capsid protein gene.

Access to the main files for the session

  • Lee et al. pre-print 2021-10-01: This pre-print introduces the genome-to-T number and MCP-to-T number models and investigates metagenomically assembled gut phage genomes.
  • VAN: Virus Anatomy Navigator: This GitHub repository is the umbrella of the different genotype-to-phenotype viral structural tools that the Luque lab has or will develop. Checkout the workshop branch.

Part 1

Overview. Images extracted from Lee et al. pre-print 2021-10-01.

Tailed phage icosahedral capsids

Phage capsids

Genotype-to-phenotype approach

Approach

Fishing structures in metagenomes

Application

Part 2

Diana Lee: Genome-to-T-number (G2T) model demonstration

Part 3

Diana Lee: MCP-to-T-number (MCP2T) model demonstration

Closure

  • Decide days for UConn visit.
  • Heads-up: Assembly Virus Workshop at SDSU (Dec 6 and 8 from 3 pm to 5 pm Pacific Time).

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