article = {COR-2018-1-108}
title = {Antisense DNA oligomer targeting of histone deacetylase 1 (HDAC1)
mRNA for potential knockdown effects}
journal = {Clinical Oncology and Research}
year = {2018}
issn = {2613-4942}
doi = {http://dx.doi.org/10.31487/j.COR.2018.10.008}
url = {https://www.sciencerepository.org/antisense-DNA-oligomer-targeting-of-histone-deacetylase-1-HDAC1-mRNA-for-potential-knockdown-effects_COR-1-108 
author = {Seung Chan Kim,}
keywords = {HDAC1,  RNAi,  antisense DNA}
abstract ={Histone Deacetylase(HDAC) is an enzyme that eliminates acetyl group from the histone octamer complex.
The acetylation state of histone proteins is a major interest of epigenetic gene expression. HDAC1 inhibitors
are used for anticancer therapeutics by controlling multiple signaling protein kinases like SAPK, ERK and
TNF-alpha. Here, we used single strand DNA 18-oligomer to mimic RNA interference technology. We
modeled the HDAC1 mRNA secondary structure and identified the possible four siRNA binding sites by
higher possibility than miR-449 targeting site. Also, its possible configuration was modeled according to
binding energies. Three places, where the possibility of siRNA binding is low, were randomly identified as
positive controls. As a Result, the 18-omer single strand DNA was generated according to the identified
sequences. This preliminary data can be further warranted to generate HDAC1 knockdown activity and its
comparison to the current HDAC1 inhibitors. Furthermore, generation of single strand DNA as a antisense
sequence to a specific mRNA can be utilized for therapeutics along with RNAi. With the thermodynamically
stable structure of DNA compared to RNA, it can be applied for long term usage.}