Annotate Anything

PipeBio has advanced support for non-antibody scaffolds
PipeBio has advanced support for non-antibody scaffolds

Non-antibody scaffolds

Classical antibody scaffolds and structures are being challenged by smaller but equally potent molecules which have a number of benefits over the large bulky IgG molecule. Non-antibody scaffolds are interesting as therapeutic drugs thus the rich interest in these scaffolds (Frejd, F. et al). Easily configure the PipeBio scaffold system to support nearly any molecular scaffold including user defined detection of liabilities, sequence motifs, or ambiguous nucleotide residues.
Classical antibody scaffolds and structures are being challenged by smaller but equally potent molecules which have a number of benefits over the large bulky IgG molecule. Non-antibody scaffolds are interesting as therapeutic drugs thus the rich interest in these scaffolds (Frejd, F. et al). Easily configure the PipeBio scaffold system to support nearly any molecular scaffold including user defined detection of liabilities, sequence motifs, or ambiguous nucleotide residues.

Look at our blog for an example analysis of affibodies.

Configure a scaffold

The system can be configured for individual scaffolds with a rule based configuration system which allows for great flexibility during the annotation process.
The system can be configured for individual scaffolds with a rule based configuration system which allows for great flexibility during the annotation process.

 Define custom regions, liabilities, errors and warnings.
 Output custom tabular data from your scaffold.

Annotate sequences

Use the predefined scaffold to annotate sequences. The no-code approach of creating scaffolds enable wet-lab scientists to quickly being able to annotate Sanger sequences or even large scald NGS sequencing runs with tens of millions of reads. Each sequence will be annotated with regions, warnings, errors and more. The results will include graphical information about annotation rates and detailed information on found liabilities.
Use the predefined scaffold to annotate sequences. The no-code approach of creating scaffolds enable wet-lab scientists to quickly being able to annotate Sanger sequences or even large scald NGS sequencing runs with tens of millions of reads. Each sequence will be annotated with regions, warnings, errors and more. The results will include graphical information about annotation rates and detailed information on found liabilities.

Cluster, plots and more

All tools, charts and more in the PipeBio platform will automatically adjust to how the scaffold was configured, making it very easy to use. Only regions used in the scaffold are show in dialogs.
All tools, charts and more in the PipeBio platform will automatically adjust to how the scaffold was configured, making it very easy to use. Only regions used in the scaffold are show in dialogs.

Charts

Data in charts are extracted based on the rules defined in the scaffold which allows for powerful plotting in a few steps.
Data in charts are extracted based on the rules defined in the scaffold which allows for powerful plotting in a few steps.

Additional functionalities

  • Push hit-picked sequences to the sequence database configured exactly for these types of sequences.
  • Re-array and assign new cloneID’s to hit-picked sequences.
  • Make beautifully looking alignments and phylogenetic trees of the annotated regions.
  • Compare sequences across panning rounds.
  • Batch Clone multiple sequences into an expression vector.
  • And a lot more.