title: Knockdown of nuclear-retained long noncoding RNAs using modified DNA antisense oligonucleotides.
abstract: Long noncoding RNAs (lncRNAs) have recently emerged as important players in diverse cellular processes. Among them, a large fraction of lncRNAs are localized within cell nucleus. And several of these nuclear-retained lncRNAs have been found to regulate key nuclear processes, which brings up the requirement of effective genetic tools to explore the functions of this "dark matter" inside the nucleus. While siRNAs and shRNAs are widely used tools in loss-of-function studies, their general efficiency in depleting nuclear-retained lncRNAs is limited, due to the fact that the RNAi machinery is located mainly in the cytoplasm of mammalian cells. Here, we describe the usage of chemically modified chimeric DNA antisense oligonucleotides (ASO) in effective knockdown of nuclear-retained lncRNAs, with a focus on the detailed workflow from the design and synthesis of ASOs, to in vitro and in vivo delivery methods.
authors.affiliation: Department of Cell and Developmental Biology, University of Illinois at Urbana-Champaign, Room, C426, Chem. and Life Sci. Building, 601S Goodwin Avenue, Urbana-Champaign, IL, 61801, USA.
authors.forename: Xinying
authors.initials: X
authors.lastname: Zong
authors.forename: Lulu
authors.initials: L
authors.lastname: Huang
authors.forename: Vidisha
authors.initials: V
authors.lastname: Tripathi
authors.forename: Raechel
authors.initials: R
authors.lastname: Peralta
authors.forename: Susan M
authors.initials: SM
authors.lastname: Freier
authors.forename: Shuling
authors.initials: S
authors.lastname: Guo
authors.forename: Kannanganattu V
authors.initials: KV
authors.lastname: Prasanth
mesh_terms: D000818:Animals; D002460:Cell Line; D002467:Cell Nucleus / Q000235:genetics; D055785:Gene Knockdown Techniques; D006367:HeLa Cells; D056945:Hep G2 Cells; D006801:Humans; D016376:Oligonucleotides, Antisense / Q000737:chemistry* / Q000235:genetics; D062085:RNA, Long Noncoding / Q000235:genetics*; D023121:RNA, Messenger, Stored / Q000235:genetics*
chemical_list: D016376:Oligonucleotides, Antisense; D062085:RNA, Long Noncoding; D023121:RNA, Messenger, Stored