Base editing: precision chemistry on the genome and transcriptome of living cells

HA Rees, DR Liu - Nature reviews genetics, 2018 - nature.com
cells, this activity can lead to changes in DNA sequence or RNA transcript abundance. Base
editing is a newer genome… to directly install point mutations into cellular DNA or RNA without …

Publisher Correction: Base editing: precision chemistry on the genome and transcriptome of living cells.

HA Rees, DR Liu - Nature Reviews. Genetics, 2018 - europepmc.org
The originally published article contained errors in reference numbering throughout table 1 (DNA
base editors and their approximate editing windows) due to the unintended …

[PDF][PDF] RNA duplex map in living cells reveals higher-order transcriptome structure

Z Lu, QC Zhang, B Lee, RA Flynn, MA Smith… - Cell, 2016 - cell.com
… -pair resolution in living cells. PARIS analysis in three human and mouse cell types
reveals … RNA-RNA interactions in trans across the transcriptome. PARIS determines base-pairing …

Live cell genomics: cell-specific transcriptome capture in live tissues and cells

TJ Bell, J Eberwine - Cell-Penetrating Peptides: Methods and Protocols, 2015 - Springer
… in vivo capture of cell-specific transcriptomes. CPPs are used to deliver multifunctional
transcriptome in vivo analysis (TIVA) capture tags into cytoplasm of the live cells. The capture …

Genome, epigenome, and transcriptome editing via chemical modification of nucleobases in living cells

BL Ranzau, AC Komor - Biochemistry, 2018 - ACS Publications
Base editors are tools that chemically modify the nucleobases of DNA and RNA in a
programmable manner, allowing for genome, epigenome, and transcriptome editing in live cells. …

Transcriptome in vivo analysis (TIVA) of spatially defined single cells in live tissue

D Lovatt, BK Ruble, J Lee, H Dueck, TK Kim, S Fisher… - Nature …, 2014 - nature.com
… populations of living cells, including neurons 8,9,10 , rely on sorting cells in suspension …
genome and transcriptome using the RNA-seq unified mapper (RUM) and mouse genome build …

Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE

RA Flynn, QC Zhang, RC Spitale, B Lee… - Nature protocols, 2016 - nature.com
… with genome-scale technologies. … transcriptome-wide structure analysis DMS was the first
chemical that was successfully applied to transcriptome-wide structure probing in living cells, …

Live cell genomics: Cell-specific transcriptome capture in live single cells from complex tissues

J Lee, J Eberwine - Cell Penetrating Peptides: Methods and Protocols, 2022 - Springer
… from the target cell. We developed a single-cell analysis procedure called transcriptome in
vivo … accurate characterization of targeted cell-specific transcriptomes from live tissue. This is …

Global analysis of genome, transcriptome and proteome reveals the response to aneuploidy in human cells

S Stingele, G Stoehr, K Peplowska, J Cox… - Molecular systems …, 2012 - embopress.org
… stable cell lines, HCT116 and RPE-1. We quantified the changes of genome, transcriptome
and proteome and determined specific pathways whose regulation is altered in these cell

The Draft Genome and Transcriptome of Panagrellus redivivus Are Shaped by the Harsh Demands of a Free-Living Lifestyle

J Srinivasan, AR Dillman, MG Macchietto… - Genetics, 2013 - academic.oup.com
… Here we report the de novo sequencing of the genome, transcriptome, and small RNAs of
P. redivivus. Using a combination of automated gene finders and RNA-seq data, we predict …