Modulation of transcriptional activity in brain lower grade glioma by alternative splicing
- Published
- Accepted
- Subject Areas
- Bioengineering, Bioinformatics, Biotechnology, Genetics, Computational Science
- Keywords
- alternative splicing, amyloid precursor protein, EST domain-containing protein Elk-1, serine/threonine kinase 16, modulator, lower grade glioma
- Copyright
- © 2018 Li et al.
- Licence
- This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
- Cite this article
- 2018. Modulation of transcriptional activity in brain lower grade glioma by alternative splicing. PeerJ Preprints 6:e26482v1 https://doi.org/10.7287/peerj.preprints.26482v1
Abstract
Proteins that modify the activity of transcription factor (TF), often called modulators, play a vital role in gene transcriptional regulation. Alternative splicing is a critical step of gene processing and it can modulate gene function by adding or removing certain protein domains, and therefore influences the activity of a protein. The objective of this study is to investigate the role of alternative splicing in modulating the transcriptional regulation in brain lower grade glioma (LGG), especially transcription factor ELK1, which is closely related to various diseases, including Alzheimer’s disease and down syndrome. Results showed that changes in the exon inclusion ratio of proteins APP and STK16 are associated with changes in the expression correlation between ELK1 and its targets. Meanwhile, the structural features of the two modulators are strongly associated with the pathological impact of exon inclusion. Our analysis suggests, protein in different splicing level could play different functions on transcription factors, hence induces multiple genes dysregulation.
Author Comment
This is a submission to PeerJ for review.
Supplemental Information
Table S1 & Table S2. Inferred APP and STK16 modulated triplets and their modulation categories
raw code
This file recodes the code we used to process raw data in this study
raw data
This raw data is splicing profile of all splicing events.
raw data
It lists all the targets information of all the transcription factors
raw data
It lists all the candidate splicing events of ELK1
raw data
The whole gene expression profile is too big to submit. So we separate it into five sub-files. This is the first part of gene expression profile.
raw data
The whole gene expression profile is too big to submit. So we separate it into five sub-files. This is the second part of gene expression profile.
raw data
The whole gene expression profile is too big to submit. So we separate it into five sub-files. This is the thir part of gene expression profile.
raw data
The whole gene expression profile is too big to submit. So we separate it into five sub-files. This is the fourt part of gene expression profile.
raw data
The whole gene expression profile is too big to submit. So we separate it into five sub-files. This is the fifth part of gene expression profile.