Some ASOs that bind in the coding region of mRNAs and induce RNase H1 cleavage can cause increases in the pre-mRNAs that may blunt total activity

Transcription Dynamics Regulate Poly(A) Tails and Expression of the RNA Degradation Machinery to Balance mRNA Levels

(2020) Boris Slobodin et al.   MOLECULAR CELL

Phosphorothioate modified oligonucleotide–protein interactions

(2020) Stanley T Crooke et al.   NUCLEIC ACIDS RESEARCH

Gapmer Antisense Oligonucleotides Targeting 5S Ribosomal RNA Can Reduce Mature 5S Ribosomal RNA by Two Mechanisms

(2020) Adam J. Pollak et al.   Nucleic Acid Therapeutics

PTC-bearing mRNA elicits a genetic compensation response via Upf3a and COMPASS components

(2019) Zhipeng Ma et al.   NATURE

Genetic compensation triggered by mutant mRNA degradation

(2019) Mohamed A. El-Brolosy et al.   NATURE

mRNA levels are buffered upon knockdown of RNA decay and translation factors via adjustment of transcription rates in human HepG2 cells

(2019) Pavneet Singh et al.   RNA Biology

mRNA levels can be reduced by antisense oligonucleotides via no-go decay pathway

(2019) Xue-hai Liang et al.   NUCLEIC ACIDS RESEARCH

Kinetic and subcellular analysis of PS-ASO/protein interactions with P54nrb and RNase H1

(2019) Timothy A Vickers et al.   NUCLEIC ACIDS RESEARCH

RNA-Targeted Therapeutics

(2018) Stanley T. Crooke et al.   Cell Metabolism

Ribosome Collision Is Critical for Quality Control during No-Go Decay

(2017) Carrie L. Simms et al.   MOLECULAR CELL

RNase H1-Dependent Antisense Oligonucleotides Are Robustly Active in Directing RNA Cleavage in Both the Cytoplasm and the Nucleus

(2017) Xue-Hai Liang et al.   MOLECULAR THERAPY

Cellular uptake and trafficking of antisense oligonucleotides

(2017) Stanley T Crooke et al.   NATURE BIOTECHNOLOGY

Mechanistic insights into precursor messenger RNA splicing by the spliceosome

(2017) Yigong Shi   NATURE REVIEWS MOLECULAR CELL BIOLOGY

RNA modifications and structures cooperate to guide RNA–protein interactions

(2017) Cole J.T. Lewis et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Translation can affect the antisense activity of RNase H1-dependent oligonucleotides targeting mRNAs

(2017) Xue-Hai Liang et al.   NUCLEIC ACIDS RESEARCH

Genetic compensation: A phenomenon in search of mechanisms

(2017) Mohamed A. El-Brolosy et al.   PLoS Genetics

Cytoplasmic RNA decay pathways - Enzymes and mechanisms

(2016) Anna Łabno et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Is H3K4me3 instructive for transcription activation?

(2016) Françoise S. Howe et al.   BIOESSAYS

The Antagonistic Gene Paralogs Upf3a and Upf3b Govern Nonsense-Mediated RNA Decay

(2016) Eleen Y. Shum et al.   CELL

Translation efficiency of mRNAs is increased by antisense oligonucleotides targeting upstream open reading frames

(2016) Xue-hai Liang et al.   NATURE BIOTECHNOLOGY

Hsp90 protein interacts with phosphorothioate oligonucleotides containing hydrophobic 2′-modifications and enhances antisense activity

(2016) Xue-Hai Liang et al.   NUCLEIC ACIDS RESEARCH

RNA cleavage products generated by antisense oligonucleotides and siRNAs are processed by the RNA surveillance machinery

(2016) Walt F. Lima et al.   NUCLEIC ACIDS RESEARCH

Development of a Quantitative BRET Affinity Assay for Nucleic Acid-Protein Interactions

(2016) Timothy A. Vickers et al.   PLoS One

Genetic compensation induced by deleterious mutations but not gene knockdowns

(2015) Andrea Rossi et al.   NATURE

Nonsense-mediated mRNA decay: an intricate machinery that shapes transcriptomes

(2015) Søren Lykke-Andersen et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Cellular localization of long non-coding RNAs affects silencing by RNAi more than by antisense oligonucleotides

(2015) Kim A. Lennox et al.   NUCLEIC ACIDS RESEARCH

Identification and characterization of intracellular proteins that bind oligonucleotides with phosphorothioate linkages

(2015) Xue-hai Liang et al.   NUCLEIC ACIDS RESEARCH

The rates of the major steps in the molecular mechanism of RNase H1-dependent antisense oligonucleotide induced degradation of RNA

(2015) Timothy A. Vickers et al.   NUCLEIC ACIDS RESEARCH

Phosphorothioate oligonucleotides can displaceNEAT1RNA and form nuclear paraspeckle-like structures

(2014) Wen Shen et al.   NUCLEIC ACIDS RESEARCH

TCP1 complex proteins interact with phosphorothioate oligonucleotides and can co-localize in oligonucleotide-induced nuclear bodies in mammalian cells

(2014) Xue-hai Liang et al.   NUCLEIC ACIDS RESEARCH

Defining the Factors That Contribute to On-Target Specificity of Antisense Oligonucleotides

(2014) Walt F. Lima et al.   PLoS One

Antisense Oligonucleotides Capable of Promoting Specific Target mRNA Reduction via Competing RNase H1-Dependent and Independent Mechanisms

(2014) Timothy A. Vickers et al.   PLoS One

Targeting of Repeated Sequences Unique to a Gene Results in Significant Increases in Antisense Oligonucleotide Potency

(2014) Timothy A. Vickers et al.   PLoS One

Mechanisms of mRNA export

(2014) Petra Björk et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Regulation of nonsense-mediated mRNA decay: Implications for physiology and disease

(2013) Rachid Karam et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Gene Expression Is Circular: Factors for mRNA Degradation Also Foster mRNA Synthesis

(2013) Gal Haimovich et al.   CELL

Human RNase H1 Is Associated with Protein P32 and Is Involved in Mitochondrial Pre-rRNA Processing

(2013) Hongjiang Wu et al.   PLoS One

Regulation of nonsense-mediated mRNA decay

(2012) Lulu Huang et al.   Wiley Interdisciplinary Reviews-RNA

Mechanisms of single-stranded phosphorothioate modified antisense oligonucleotide accumulation in hepatocytes

(2011) Erich Koller et al.   NUCLEIC ACIDS RESEARCH

Transcriptional Activity Affects the H3K4me3 Level and Distribution in the Coding Region

(2010) C. Y. Okitsu et al.   MOLECULAR AND CELLULAR BIOLOGY

Efficient and specific knockdown of small non-coding RNAs in mammalian cells and in mice

(2010) Xue-hai Liang et al.   NUCLEIC ACIDS RESEARCH

RNA Processing and Export

(2010) S. Hocine et al.   Cold Spring Harbor Perspectives in Biology

No-go decay: a quality control mechanism for RNA in translation

(2010) Yuriko Harigaya et al.   Wiley Interdisciplinary Reviews-RNA

Analysis of Dom34 and Its Function in No-Go Decay

(2009) Dario O. Passos et al.   MOLECULAR BIOLOGY OF THE CELL

Exploring RNA transcription and turnover in vivo by using click chemistry

(2008) C. Y. Jao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA