Author: Chunxi Zeng; Xucheng Hou; Jingyue Yan; Chengxiang Zhang; Wenqing Li; Weiyu Zhao; Shi Du; Yizhou Dong
Title: Leveraging mRNAs sequences to express SARS-CoV-2 antigens in vivo Document date: 2020_4_5
ID: aju2nr9x_29
Snippet: De novo design of 5' UTR 5' UTRs were designed de novo using AntaRNA (http://rna.informatik.uni-freiburg.de) 47 with predefined nucleotide composition as the sequence constrain and minimal secondary structure as the structural constrain. GU base pairs were permitted. The secondary structure of the output sequences was further confirmed by RNAfold (http://rna.tbi.univie.ac.at/cgibin/RNAWebSuite/RNAfold.cgi). Sequences with undesired secondary stru.....
Document: De novo design of 5' UTR 5' UTRs were designed de novo using AntaRNA (http://rna.informatik.uni-freiburg.de) 47 with predefined nucleotide composition as the sequence constrain and minimal secondary structure as the structural constrain. GU base pairs were permitted. The secondary structure of the output sequences was further confirmed by RNAfold (http://rna.tbi.univie.ac.at/cgibin/RNAWebSuite/RNAfold.cgi). Sequences with undesired secondary structures were discarded. The microRNA binding sites within 5' UTR were predicted using the custom prediction tool in the microRNA database (miRDB) (http://mirdb.org/) 48 . Due to the minimum size limit of 100nt for mRNA target submission, the full 5' UTR and first 100 nucleotides of the firefly luciferase coding region were used as the input sequences.
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