Evidence map›Paper›PMID 25506295›Full record

ArticleNatural computing2014

Modeling Scalable Pattern Generation in DNA Reaction Networks.

Peter B Allen, Xi Chen, Zack B Simpson, Andrew D Ellington

Abstract read
In one paragraph

Article in Natural computing, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
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

4 authors.

Peter B Allen
Xi Chen
Zack B Simpson
Andrew D Ellington

Funding

Amorphous computation with transcription logic gatesR01GM094933 · NIGMS · UNIVERSITY OF TEXAS AT AUSTIN · PI ELLINGTON, ANDREW D · 2010 to 2013
$1.2M
Directed evolution of RNA ligases for high-throughput sequencingR21HG005763 · NHGRI · UNIVERSITY OF TEXAS AT AUSTIN · PI ELLINGTON, ANDREW D · 2010 to 2011
$448k
Enzyme Bioreactor for Optimized Production of Modified Nucleic AcidsF32GM095280 · NIGMS · UNIVERSITY OF TEXAS AT AUSTIN · PI ALLEN, PETER B · 2010 to 2011
$99k
NHGRI NIH HHS R21 HG005763NIGMS NIH HHS F32 GM095280NIGMS NIH HHS R01 GM094933
6 · The paper itself

Abstract

We have developed a theoretical framework for developing patterns in multiple dimensions using controllable diffusion and designed reactions implemented in DNA. This includes so-called strand displacement reactions in which one single-stranded DNA hybridizes to a hemi-duplex DNA and displaces another single-stranded DNA, reversibly or irreversibly. These reactions can be designed to proceed with designed rate and molecular specificity. By also controlling diffusion by partial complementarity to a stationary, cross-linked DNA, we can generate predictable patterns. We demonstrate this with several simulations showing deterministic, predictable shapes in space.

Identifiers

PMID25506295
PMCPMC4261192

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.