Abstract
Exitron splicing (EIS) events in cancers can disrupt functional protein domains to cause cancer driver effects. EIS has been recognized as a new source of tumor neoantigens. Here, we describe an integrated protocol for EIS and EIS-derived neoantigen identification using RNA-seq data. The protocol constitutes a step-by-step guide from data collection to neoantigen prediction. For complete details on the use and execution of this protocol, please refer to Wang et al. (2021).
| Original language | English (US) |
|---|---|
| Article number | 100788 |
| Journal | STAR Protocols |
| Volume | 2 |
| Issue number | 3 |
| DOIs | |
| State | Published - Sep 17 2021 |
Bibliographical note
Funding Information:We acknowledge the following sources of funding: DoD ( W81XWH-19-1-0161 ) to R.Y. and Eagles Telethon Postdoctoral Fellowship to T.-Y.W. We thank Dr. Jeffrey McDonald at The Hormel Institute for his technical support for computing facilities. Support from the Minnesota Supercomputer Institute (MSI) is also gratefully acknowledged.
Funding Information:
We acknowledge the following sources of funding: DoD (W81XWH-19-1-0161) to R.Y. and Eagles Telethon Postdoctoral Fellowship to T.-Y.W. We thank Dr. Jeffrey McDonald at The Hormel Institute for his technical support for computing facilities. Support from the Minnesota Supercomputer Institute (MSI) is also gratefully acknowledged. Writing, T.-Y.W. and R.Y.; development and processing, T.-Y.W.; funding acquisition, R.Y. The authors declare no competing interests.
Publisher Copyright:
© 2021 The Author(s)
Keywords
- Bioinformatics
- Cancer
- Genetics
- Genomics
- Immunology
- RNAseq
PubMed: MeSH publication types
- Journal Article
- Research Support, Non-U.S. Gov't
- Research Support, U.S. Gov't, Non-P.H.S.
