SpliceGrapher: detecting patterns of alternative splicing from RNA-Seq data in the context of gene models and EST data View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2012-01

AUTHORS

Mark F Rogers, Julie Thomas, Anireddy SN Reddy, Asa Ben-Hur

ABSTRACT

We propose a method for predicting splice graphs that enhances curated gene models using evidence from RNA-Seq and EST alignments. Results obtained using RNA-Seq experiments in Arabidopsis thaliana show that predictions made by our SpliceGrapher method are more consistent with current gene models than predictions made by TAU and Cufflinks. Furthermore, analysis of plant and human data indicates that the machine learning approach used by SpliceGrapher is useful for discriminating between real and spurious splice sites, and can improve the reliability of detection of alternative splicing. SpliceGrapher is available for download at http://SpliceGrapher.sf.net. More... »

PAGES

r4

References to SciGraph publications

Identifiers

URI

http://scigraph.springernature.com/pub.10.1186/gb-2012-13-1-r4

DOI

http://dx.doi.org/10.1186/gb-2012-13-1-r4

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1047810206

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/22293517


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Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1186/gb-2012-13-1-r4'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1186/gb-2012-13-1-r4'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1186/gb-2012-13-1-r4'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1186/gb-2012-13-1-r4'


 

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