Evidence map›Paper›PMID 24194608›Full record

ArticleNucleic acids research2014

Co-transcriptional production of RNA-DNA hybrids for simultaneous release of multiple split functionalities.

Kirill A Afonin, Ravi Desai, Mathias Viard, Maria L Kireeva, Eckart Bindewald, Christopher L Case, Anna E Maciag, Wojciech K Kasprzak, Taejin Kim, Alison Sappe and 5 more

Abstract read
In one paragraph

Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.

0numbers the graph read from it
0cells of the map it votes in
42citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

42 citing papers in PubMed.

  1. Article
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  8. Programmable DNA-augmented hydrogels for controlled activation of human lymphocytes.Nanomedicine : nanotechnology, biology, and medicine · 2021
    Article
  9. Article
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  14. Exosome mediated delivery of functional nucleic acid nanoparticles (NANPs).Nanomedicine : nanotechnology, biology, and medicine · 2020
    Article
  15. Review
  16. Article
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  19. Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

15 authors.

Kirill A AfoninCenter for Cancer Research Nanobiology Program, NCI-Frederick, Frederick, MD 21702, USA, Basic Science Program, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA, Gene Regulation and Chromosome Biology Laboratory, Center for Cancer Research, NCI, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA, HIV Drug Resistance Program, NCI-Frederick, Frederick, MD 21702, USA and Chemical Biology Laboratory, NCI, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA.
Ravi Desai
Mathias Viard
Maria L Kireeva
Eckart Bindewald
Christopher L Case
Anna E Maciag
Wojciech K Kasprzak
Taejin Kim
Alison Sappe
Marissa Stepler
Vineet N Kewalramani
Mikhail Kashlev
Robert Blumenthal
Bruce A Shapiro

Funding

Mechanisms of transcription pausing and fidelity in prokaryotes and eukaryotesZIABC010795 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI KASHLEV, MIKHAIL · 2009 to 2025
$18.1M
Computational RNA NanodesignZIABC011061 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI SHAPIRO, BRUCE · 2009 to 2021
$12.3M
The Role of RISC Proteins in HIV-1 ReplicationZIABC011461 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI KEWALRAMANI, VINEET N · 2012 to 2025
$2.9M
CCR NIH HHS HHSN261200800001CIntramural NIH HHSNCI NIH HHS HHSN261200800001E
6 · The paper itself

Abstract

Control over the simultaneous delivery of different functionalities and their synchronized intracellular activation can greatly benefit the fields of RNA and DNA biomedical nanotechnologies and allow for the production of nanoparticles and various switching devices with controllable functions. We present a system of multiple split functionalities embedded in the cognate pairs of RNA-DNA hybrids which are programmed to recognize each other, re-associate and form a DNA duplex while also releasing the split RNA fragments which upon association regain their original functions. Simultaneous activation of three different functionalities (RNAi, Förster resonance energy transfer and RNA aptamer) confirmed by multiple in vitro and cell culture experiments prove the concept. To automate the design process, a novel computational tool that differentiates between the thermodynamic stabilities of RNA-RNA, RNA-DNA and DNA-DNA duplexes was developed. Moreover, here we demonstrate that besides being easily produced by annealing synthetic RNAs and DNAs, the individual hybrids carrying longer RNAs can be produced by RNA polymerase II-dependent transcription of single-stranded DNA templates.

Indexed as

Aptamers, NucleotideCell Line, TumorDNAFluorescence Resonance Energy TransferHumansModels, MolecularRNARNA InterferenceRNA Polymerase IIThermodynamicsTranscription, GeneticAptamers, NucleotideDNARNARNA Polymerase II

Identifiers

PMID24194608
PMCPMC3919563

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.