Soft computing model for optimized siRNA design by identifying off target possibilities using artificial neural network model

Gene
Reena MuraliDavid Peter S

Abstract

The ability of small interfering RNA (siRNA) to do posttranscriptional gene regulation by knocking down targeted genes is an important research topic in functional genomics, biomedical research and in cancer therapeutics. Many tools had been developed to design exogenous siRNA with high experimental inhibition. Even though considerable amount of work has been done in designing exogenous siRNA, design of effective siRNA sequences is still a challenging work because the target mRNAs must be selected such that their corresponding siRNAs are likely to be efficient against that target and unlikely to accidentally silence other transcripts due to sequence similarity. In some cases, siRNAs may tolerate mismatches with the target mRNA, but knockdown of genes other than the intended target could make serious consequences. Hence to design siRNAs, two important concepts must be considered: the ability in knocking down target genes and the off target possibility on any nontarget genes. So before doing gene silencing by siRNAs, it is essential to analyze their off target effects in addition to their inhibition efficacy against a particular target. Only a few methods have been developed by considering both efficacy and off target possibility...Continue Reading

References

Oct 3, 2002·Nature Reviews. Genetics·Michael T McManus, Phillip A Sharp
Dec 26, 2002·The Journal of Biological Chemistry·Timothy A VickersBrenda F Baker
Feb 26, 2003·Genes & Development·John G DoenchPhillip A Sharp
May 20, 2003·Nature Biotechnology·Aimee L JacksonPeter S Linsley
Feb 6, 2004·Nature Biotechnology·Angela ReynoldsAnastasia Khvorova
Sep 17, 2004·Nature·Gunter Meister, Thomas Tuschl
Sep 17, 2004·Nature·Gregory J Hannon, John J Rossi
Nov 13, 2004·Nature·Jürgen SoutschekHans-Peter Vornlocher
Feb 6, 2007·Drug Discovery Today·Volker Patzel
Apr 12, 2007·Nucleic Acids Research·Olga MatveevaSvetlana A Shabalina
Jul 17, 2007·Cell·Stefan Ludwig AmeresRenée Schroeder

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Biochemical and Biophysical Research Communications
Ola SnøvePål Saetrom
Biochemical and Biophysical Research Communications
Ola Snøve, Torgeir Holen
Methods in Molecular Biology
Firoz AhmedPatrick Xuechun Zhao
Methods in Molecular Biology
Yuki Naito, Kumiko Ui-Tei
© 2022 Meta ULC. All rights reserved