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EPI2ME Labs Clone validation tutorial
Instead of running the EPI2ME analysis workflow, the user can deploy the Clone validation tutorial in EPI2ME Labs to further analyse sequence data.
EPI2ME Labs extends the JupyterLab notebook framework with a pre-configured analysis server. The notebooks contain Python code needed to run data analysis, however zero configuration of the code is required. The notebooks can be used both by students and researchers new to nanopore sequence data analysis, and more experienced bioinformaticians who are comfortable working with Python.
Follow the EPI2ME Labs Quick Start Guide to install and launch the EPI2ME Labs notebook server.
The clone validation tutorial can be accessed by following the link: https://labs.epi2me.io/notebooks/Clone_validation_tutorial.html
The workflow is intended to assess a molecular cloning experiment, specifically whether the introduction of one sequence into another has been successful: for example, the introduction of a protein-encoding sequence into a plasmid vector molecule.
Questions answered by this tutorial include:
- If a barcoding strategy has been used, what fraction of demultiplexed reads correspond to the target of interest?
- Does a sequenced DNA construct correspond to its expected sequence?
- Does the sequenced DNA construct contain frameshifts or base substitions?
- If the DNA construct encodes a peptide sequence, is the peptide sequence correct?