RNA sequencing: the teenage years

R Stark, M Grzelak, J Hadfield - Nature Reviews Genetics, 2019 - nature.com
Over the past decade, RNA sequencing (RNA-seq) has become an indispensable tool for
transcriptome-wide analysis of differential gene expression and differential splicing of …

Beyond mass spectrometry, the next step in proteomics

W Timp, G Timp - Science Advances, 2020 - science.org
Proteins can be the root cause of a disease, and they can be used to cure it. The need to
identify these critical actors was recognized early (1951) by Sanger; the first biopolymer …

A split prime editor with untethered reverse transcriptase and circular RNA template

B Liu, X Dong, H Cheng, C Zheng, Z Chen… - Nature …, 2022 - nature.com
Delivery and optimization of prime editors (PEs) have been hampered by their large size
and complexity. Although split versions of genome-editing tools can reduce construct size …

Engineered CRISPR prime editors with compact, untethered reverse transcriptases

J Grünewald, BR Miller, RN Szalay… - Nature …, 2023 - nature.com
The CRISPR prime editor PE2 consists of a Streptococcus pyogenes Cas9 nickase
(nSpCas9) fused at its C-terminus to a Moloney murine leukemia virus reverse transcriptase …

High-resolution quantitative profiling of tRNA abundance and modification status in eukaryotes by mim-tRNAseq

A Behrens, G Rodschinka, DD Nedialkova - Molecular cell, 2021 - cell.com
Measurements of cellular tRNA abundance are hampered by pervasive blocks to cDNA
synthesis at modified nucleosides and the extensive similarity among tRNA genes. We …

Mirror-image T7 transcription of chirally inverted ribosomal and functional RNAs

Y Xu, TF Zhu - Science, 2022 - science.org
To synthesize a chirally inverted ribosome with the goal of building mirror-image biology
systems requires the preparation of kilobase-long mirror-image ribosomal RNAs that make …

Evolution of a reverse transcriptase to map N1-methyladenosine in human messenger RNA

H Zhou, S Rauch, Q Dai, X Cui, Z Zhang… - Nature …, 2019 - nature.com
Chemical modifications to messenger RNA are increasingly recognized as a critical
regulatory layer in the flow of genetic information, but quantitative tools to monitor RNA …

A rapid RIG-I signaling relay mediates efficient antiviral response

DT Thoresen, D Galls, B Götte, W Wang, AM Pyle - Molecular cell, 2023 - cell.com
RIG-I is essential for host defense against viral pathogens, as it triggers the release of type I
interferons upon encounter with viral RNA molecules. In this study, we show that RIG-I is …

Full-length RNA profiling reveals pervasive bidirectional transcription terminators in bacteria

X Ju, D Li, S Liu - Nature microbiology, 2019 - nature.com
The ability to determine full-length nucleotide composition of individual RNA molecules is
essential for understanding the architecture and function of a transcriptome. However …

Cis-mediated interactions of the SARS-CoV-2 frameshift RNA alter its conformations and affect function

L Pekarek, MM Zimmer, AS Gribling-Burrer… - Nucleic Acids …, 2023 - academic.oup.com
The RNA genome of SARS-CoV-2 contains a frameshift stimulatory element (FSE) that
allows access to an alternative reading frame through− 1 programmed ribosomal …