Splicing Express protocols

View Splicing Express computational protocol

Splicing Express statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Alternative splicing events identification Transcriptome annotation Alternative splicing visualization chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

Splicing Express specifications

Information


Unique identifier OMICS_18041
Name Splicing Express
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Input data Requires GTF files
Input format GTF
Output data Expression graphics
Output format HTML
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Version 1.1
Stability Stable
Maintained Yes

Download


Versioning


Add your version

Maintainer


  • person_outline Sandro de Souza <>

Publication for Splicing Express

Splicing Express in pipeline

2018
PMCID: 5813380
PMID: 29444639
DOI: 10.1186/s12864-018-4515-2

[…] as event, while intron retention is the rarest one, i.e. they comprise 36.7% and 12.2% of all gm as events, respectively (additional fileĀ : table s4). similar results were obtained with the splicing express software [] (additional fileĀ : table s4), i.e. exon skipping was the most prevalent as event (41.1%) and intron retention the least favoured one (12.7%)., we used two different […]


To access a full list of citations, you will need to upgrade to our premium service.

Splicing Express in publications

 (2)
PMCID: 5813380
PMID: 29444639
DOI: 10.1186/s12864-018-4515-2

[…] estimate of the log2fc is divided by its standard error, generating a z-statistic that can be compared to a standard normal distribution []., to classify splicing events with the suppa [] and splicing express [] softwares, genome bam files were generated with the star software [], by using the same parameters described above. these bam files were employed to assemble transcripts […]

PMCID: 5582454
PMID: 28912681
DOI: 10.3389/fnmol.2017.00275

[…] (gene only) and inclusion of both direct and indirect relationships. the analysis used fisher's exact test to calculate p-values., alternative splicing events (ase) were identified by the software splicing express (kroll et al., ). briefly, all gtf files created by cufflinks (roberts et al., ) were inserted with the mouse genome reference sequence (mm10) to run the software splicing express […]


To access a full list of publications, you will need to upgrade to our premium service.

Splicing Express institution(s)
Institute of Bioinformatics and Biotechnology, Natal, Rio Grande do Norte, Brazil; Brain Institute, Universidade Federal do Rio Grande do Norte, Natal, Rio Grande do Norte, Brazil; Department of Biomedical Informatics, University of California, San Diego, La Jolla, CA, USA
Splicing Express funding source(s)
This work was supported by CNPq: 501891/2013-7, 483775/2012-6; CAPES: edital 051/2013; NIH: D43TW007015, U54HL108460.

Splicing Express reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Splicing Express