Antisense transcription as a tool to tune gene expression

JAN Brophy, CA Voigt - Molecular systems biology, 2016 - embopress.org
A surprise that has emerged from transcriptomics is the prevalence of genomic antisense
transcription, which occurs counter to gene orientation. While frequent, the roles of antisense …

What is an RNA? A top layer for RNA classification

J Brosius, CA Raabe - RNA biology, 2016 - Taylor & Francis
Every ribonucleic acid begins its cellular life as a transcript. If the transcript or its processing
product has a function it should be regarded an RNA. Nonfunctional transcripts, by-products …

Serial activation of the inducible caspase 9 safety switch after human stem cell transplantation

X Zhou, S Naik, O Dakhova, G Dotti, HE Heslop… - Molecular therapy, 2016 - cell.com
Activation of the inducible caspase 9 (iC9) safety gene by a dimerizing drug (chemical
inducer of dimerization (CID) AP1903) effectively resolves the symptoms and signs of graft …

Transcriptional interference in convergent promoters as a means for tunable gene expression

AE Bordoy, US Varanasi, CM Courtney… - ACS synthetic …, 2016 - ACS Publications
An important goal of synthetic biology involves the extension and standardization of novel
biological elements for applications in medicine and biotechnology. Transcriptional …

The role of repressor kinetics in relief of transcriptional interference between convergent promoters

N Hao, AC Palmer, A Ahlgren-Berg… - Nucleic Acids …, 2016 - academic.oup.com
Transcriptional interference (TI), where transcription from a promoter is inhibited by the
activity of other promoters in its vicinity on the same DNA, enables transcription factors to …

Transcription-coupled changes to chromatin underpin gene silencing by transcriptional interference

R Ard, RC Allshire - Nucleic acids research, 2016 - academic.oup.com
Long non-coding RNA (lncRNA) transcription into a downstream promoter frequently results
in transcriptional interference. However, the mechanism of this repression is not fully …

Long-range transcriptional interference in E. coli used to construct a dual positive selection system for genetic switches

SA Hoffmann, SM Kruse, KM Arndt - Nucleic acids research, 2016 - academic.oup.com
We have investigated transcriptional interference between convergent genes in E. coli and
demonstrate substantial interference for inter-promoter distances of as far as 3 kb …

Clonal dynamics in vivo of virus integration sites of T cells expressing a safety switch

EC Chang, H Liu, JA West, X Zhou, O Dakhova… - Molecular Therapy, 2016 - cell.com
Safety switches are becoming relevant for the clinical translation of T-cell–based
immunotherapies. In patients receiving an allogeneic hematopoietic stem cell transplant, the …

Effect of DNA bending on transcriptional interference in the systems of closely spaced convergent promoters

ON Koroleva, EV Dubrovin, IV Yaminsky… - Biochimica et Biophysica …, 2016 - Elsevier
Background Over the past years there are increasing evidences that the interplay between
two molecules of RNA polymerases, initiating transcription from promoters, oriented in …

A multispecies exclusion model inspired by transcriptional interference

S Ghosh, T Bameta, D Ghanti… - Journal of Statistical …, 2016 - iopscience.iop.org
We introduce exclusion models of two distinguishable species of hard rods with their distinct
sites of entry and exit under open boundary conditions. In the first model both species of …