English
 
Help Privacy Policy Disclaimer
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT

Released

Book Chapter

Predicting genes in closely related species with Scipio and WebScipio.

MPS-Authors
/persons/resource/persons15357

Kollmar,  M.
Research Group of Systems Biology of Motor Proteins, MPI for biophysical chemistry, Max Planck Society;

External Resource
No external resources are shared
Fulltext (restricted access)
There are currently no full texts shared for your IP range.
Fulltext (public)
There are no public fulltexts stored in PuRe
Supplementary Material (public)
There is no public supplementary material available
Citation

Kollmar, M. (2019). Predicting genes in closely related species with Scipio and WebScipio. In M. Kollmar (Ed.), Gene Prediction.


Cite as: https://hdl.handle.net/21.11116/0000-0003-7C4C-E
Abstract
Scipio and WebScipio are homology-based gene prediction software designed for annotating multigenic families and for transferring annotations from one species to closely related species. The strengths include the power to cope with sequencing-related problems such as sequencing errors and assemblies with short contigs but also the ability to correctly predict genes with unusually long introns and/or rather short exons. WebScipio is connected to diArk, the largest collection of eukaryotic genome assemblies, and thereby offers a very convenient way to correct existing annotations and to extend protein family datasets. WebScipio is also a key resource for researchers interested in mutually exclusive splicing, allowing to search for alternative exons not only in introns but also in up- and downstream regions in case of incompleteness of the search sequence. In this chapter, I describe how to use Scipio and WebScipio keeping a first-time user in mind.