title: An in silico approach to design potential siRNA molecules for ICP22 (US1) gene silencing of different strains of human herpes simplex 1.
abstract: BACKGROUND
  The herpes simplex virus (HSV-1) is a virus that manifests itself in viral infection with painful, watery blisters in the skin or on the genitals as well as mucous membrane such as the mouth or lips. During an outbreak, the disease is contagious particularly and is irredeemable with present technology. Genetic studies of HSV-1 have shown that ICP22 (US1) gene is an immediate early gene and is responsible for genome replication and also has contribution in viral infection.
  
  
  METHODS
  For disease diagnosis, ICP22 (US1) gene may be suitable target. Viral activity can be controlled through RNA interference technology, a significant method for the post-transcriptional gene silencing. However, in different viral isolates there is a genetic variability; it is very challenging to design possible siRNA molecules which can silence the respective target genes. The work was done by using various computational tools as similarity search, target alignment, secondary structure prediction and RNA interaction evaluation.
  
  
  RESULTS
  In our study two effective siRNA molecules for ICP22 (US1) gene silencing of seven different strains of HSV-1 were rationally designed and authenticated using computational methods, which might lead to knockdown the viral activity.
  
  
  CONCLUSIONS
  siRNA molecules were foreseen against ICP22 (US1) gene of different strains of HSV-1 as effective aspirant using computational methods. Thus, the approach may deliver a vision for the chemical synthesis of antiviral RNA molecule for treatment of HSV-1, at genomic level.
authors.affiliation: Department of Genetic Engineering and Biotechnology, Faculty of Biological Sciences, University of Chittagong, Chittagong 4331, Bangladesh.
authors.forename: Suza Mohammad
authors.initials: SM
authors.lastname: Nur
authors.forename: Mohammad
authors.initials: M
authors.lastname: Al Amin
authors.forename: Rashel
authors.initials: R
authors.lastname: Alam
authors.forename: Md Anayet
authors.initials: MA
authors.lastname: Hasan
authors.forename: Md Amzad
authors.initials: MA
authors.lastname: Hossain
authors.forename: Adnan
authors.initials: A
authors.lastname: Mannan
keywords: Antiviral; HSV-1; ICP22 (US1) gene; RNAi; siRNA
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