Mutation effect on sites (analysis)

From BioUML platform
Jump to: navigation, search
Analysis title
BSA-Mutation-effect-on-sites-icon.png Mutation effect on sites
Provider
Institute of Systems Biology
Class
MutationEffectOnSites
Plugin
ru.biosoft.bsa (Bio-sequences analyses plugin)

Description

Find transcription factor binsing sites affected by mutations

Parameters:

  • Input VCF track – Input track in VCF format
  • Genome – Reference genome
    • Sequences source – Select database to get sequences from or 'Custom' to specify sequences location manually
    • Sequence collection – Specify path to folder containing sequences if 'Custom' sequences source is selected
  • Profile – Predefined set of site models
  • Score difference – Minimal site score difference between reference and alternative sequences
  • Site gain track – Resulting track with site gain events
  • Site loss track – Resulting track with site gain events
  • Summary table – Summary table giving site model frequencies per mutation
Personal tools
Namespaces

Variants
Actions
BioUML platform
Community
Modelling
Analysis & Workflows
Collaborative research
Development
Virtual biology
Wiki
Toolbox