SiRNAdb: a Database of SiRNA Sequences

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2004 Dec 21

PMID 15608162

Citations 21

Authors

Alistair M Chalk

Richard E Warfinge

Patrick Georgii-Hemming

Erik L L Sonnhammer

Affiliations

Soon will be listed here.

Abstract

Short interfering RNAs (siRNAs) are a popular method for gene-knockdown, acting by degrading the target mRNA. Before performing experiments it is invaluable to locate and evaluate previous knockdown experiments for the gene of interest. The siRNA database provides a gene-centric view of siRNA experimental data, including siRNAs of known efficacy and siRNAs predicted to be of high efficacy by a combination of methods. Linked to these sequences is information such as siRNA thermodynamic properties and the potential for sequence-specific off-target effects. The database enables the user to evaluate an siRNA's potential for inhibition and non-specific effects. The database is available at http://siRNA.cgb.ki.se.

Citing Articles

siRNAEfficacyDB: An experimentally supported small interfering RNA efficacy database.

Zhang Y, Yang T, Yang Y, Xu D, Hu Y, Zhang S IET Syst Biol. 2024; 18(6):199-207.

PMID: 39541343 PMC: 11665841. DOI: 10.1049/syb2.12102.

A Graph Neural Network Approach for the Analysis of siRNA-Target Biological Networks.

La Rosa M, Fiannaca A, La Paglia L, Urso A Int J Mol Sci. 2022; 23(22).

PMID: 36430688 PMC: 9696923. DOI: 10.3390/ijms232214211.

In Silico Methods for the Identification of Viral-Derived Small Interfering RNAs (vsiRNAs) and Their Application in Plant Genomics.

Narayan A, Zahra S, Singh A, Kumar S Methods Mol Biol. 2022; 2408:71-84.

PMID: 35325416 DOI: 10.1007/978-1-0716-1875-2_4.

PVsiRNAdb: a database for plant exclusive virus-derived small interfering RNAs.

Gupta N, Zahra S, Singh A, Kumar S Database (Oxford). 2018; 2018.

PMID: 30307523 PMC: 6181178. DOI: 10.1093/database/bay105.

SiRNA silencing efficacy prediction based on a deep architecture.

Han Y, He F, Chen Y, Liu Y, Yu H BMC Genomics. 2018; 19(Suppl 7):669.

PMID: 30255786 PMC: 6157246. DOI: 10.1186/s12864-018-5028-8.

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