iBet uBet web content aggregator. Adding the entire web to your favor.
iBet uBet web content aggregator. Adding the entire web to your favor.



Link to original content: http://www.ncbi.nlm.nih.gov/pubmed/26085220
repRNA: a web server for generating various feature vectors of RNA sequences - PubMed Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2016 Feb;291(1):473-81.
doi: 10.1007/s00438-015-1078-7. Epub 2015 Jun 18.

repRNA: a web server for generating various feature vectors of RNA sequences

Bin Liu  1   2   3 , Fule Liu  4 , Longyun Fang  5 , Xiaolong Wang  6   7 , Kuo-Chen Chou  8   9
Affiliations

repRNA: a web server for generating various feature vectors of RNA sequences

Bin Liu et al. Mol Genet Genomics. 2016 Feb.

Abstract

With the rapid growth of RNA sequences generated in the postgenomic age, it is highly desired to develop a flexible method that can generate various kinds of vectors to represent these sequences by focusing on their different features. This is because nearly all the existing machine-learning methods, such as SVM (support vector machine) and KNN (k-nearest neighbor), can only handle vectors but not sequences. To meet the increasing demands and speed up the genome analyses, we have developed a new web server, called "representations of RNA sequences" (repRNA). Compared with the existing methods, repRNA is much more comprehensive, flexible and powerful, as reflected by the following facts: (1) it can generate 11 different modes of feature vectors for users to choose according to their investigation purposes; (2) it allows users to select the features from 22 built-in physicochemical properties and even those defined by users' own; (3) the resultant feature vectors and the secondary structures of the corresponding RNA sequences can be visualized. The repRNA web server is freely accessible to the public at http://bioinformatics.hitsz.edu.cn/repRNA/ .

Keywords: Physicochemical properties; PseAAC; PseKNC; Secondary structure of RNA; User-defined properties; repDNA; repRNA.

PubMed Disclaimer

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. J Theor Biol. 2015 Jan 21;365:96-103 - PubMed
    1. J Theor Biol. 2012 Jan 21;293:121-30 - PubMed
    1. J Theor Biol. 2011 Mar 21;273(1):236-47 - PubMed
    1. PLoS One. 2015 Mar 30;10 (3):e0121501 - PubMed
    1. J Theor Biol. 2010 Mar 21;263(2):203-9 - PubMed

Publication types

LinkOut - more resources