Scheduled Maintenance

Due to a cluster migration analyses submission is temporarly disabled.
We will back online as soon as possible







 
Your browser (unknown) is not fully supported. Some features may not properly work, we warmly recommend to use a different browser.
Supported browser are: Mozilla Firefox, Google Chrome, Internet Explorer, Opera and Safari×
service logo

Welcome to ExpEdit

RNA editing is a widespread post-transcriptional molecular phenomenon that can increase proteomic diversity, by modifying the sequence of completely or partially non-functional primary transcripts, through a variety of mechanistically and evolutionarily unrelated pathways [1]. Editing by base substitution has been investigated in animals, plants and viruses [2]. In human, the A-to-I substitution is the most frequent editing event, carried out by members of ADAR (adenosine deaminases acting on RNA) family [3]. Such alterations can be predicted by computational analyses based on the alignment of mRNA/EST sequences onto the genome of origin [4]. Recent high-throughput sequence technologies offer the unique opportunity to study entire transcriptomes in a variety of experimental conditions. Massive RNA sequencing, therefore, may facilitate the investigation of post-transcriptional mechanisms occurring herein.

In order to detect A-to-I editing sites in human supported by transcript data obtained by RNA-Seq experiments we developed the web application ExpEdit. In our system, mapping data (in SAM/BAM format) or directly sequence reads (in FASTQ or SRA format) can be provided as input to carry out a comparative analysis against a large collection of known editing sites collected in DARNED database [5] as well as other user-provided potentially edited positions.

References:

1. Gott, J.M. and Emeson, R.B. (2000) Annual review of genetics, 34, 499-531 PMID: 11092837

2. Casey, J.L. (2006) Current topics in microbiology and immunology, 307, 67-89 PMID: 16903221

3. Keegan, L.P., Gallo, A., O'Connell, MA. (2001) The many roles of an RNA editor. Nature Review Genetics, 2(11):869-78 PMID: 11715042

4. Levanon, E.Y. et al. (2004) Systematic identification of abundant A-to-I editing sites in the human transcriptome. Nature Biotechnology, 22(8):1001-5 PMID:15258596

5. Kiran A. and Baranov, PV. (2010) DARNED: a DAtabase of RNa EDiting in humans. Bioinformatics, 15;26(14):1772-6 PMID: 20547637

Login


Click here to register a new account


Forgot your password? Click here to reset

News

    No news available for this service at the moment

[Valid RSS]

Login


Click here to register a new account


Forgot your password? Click here to reset×