:: DESCRIPTION
SnoReport is a software of detecting novel or orphan snoRNAs in RNA sequence data using sequence and structure information only without relying on target information.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
SnoReport: computational identification of snoRNAs with unknown targets.
Bioinformatics. 2008 Jan 15;24(2):158-64. Epub 2007 Sep 25.
Hertel J, Hofacker IL, Stadler PF.
:: DESCRIPTION
snoGPS is a program for computationally screening genomic sequences for H/ACA guide snoRNAs.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Schattner P, Decatur WA, Davis C, Ares, M, Fournier, MJ and Lowe, TM, (2004)
“Genome-wide Searching for Pseudouridylation Guide snoRNAs: Analysis of the Saccharomyces cerevisiae genome”,
Nucleic Acids Res vol. 32(14): pp. 4281-4296
:: DESCRIPTION
Snoscansearchs for C/D box methylation guide snoRNA genes in a genomic sequence.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Lowe, T.M. & Eddy, S.E. (1999)
“A computational screen for methylation guide snoRNAs in yeast“,
Science 283:1168-71
:: DESCRIPTION
PLEXY is a tool for computation of optimal thermodynamical interactions of a box C/D snoRNA (Small nucleolar RNAs) with a putative target RNA.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2011 Jan 15;27(2):279-80. Epub 2010 Nov 13.
PLEXY: efficient target prediction for box C/D snoRNAs.
Kehr S, Bartschat S, Stadler PF, Tafer H.
:: DESCRIPTION
RNAsnoop is a tool especially designed to search for putative interactions between a H/ACA snoRNA stem and a list of target sequence. RNAsnoop implements a dynamic programming algorithm that computes thermodynamically optimal H/ACA-RNA interactions in an efficient scanning variant. Complemented by an support vector machine (SVM)-based machine learning approach to distinguish true binding sites from spurious solutions and a system to evaluate comparative information, it presents an efficient and reliable tool for the prediction of H/ACA snoRNA target sites. We apply RNAsnoop to identify the snoRNAs that are responsible for several of the remaining ‘orphan’ pseudouridine modifications in human rRNAs, and we assign a target to one of the five orphan H/ACA snoRNAs in Drosophila.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2010 Mar 1;26(5):610-6. Epub 2009 Dec 16.
RNAsnoop: efficient target prediction for H/ACA snoRNAs.
Tafer H, Kehr S, Hertel J, Hofacker IL, Stadler PF.
