Evidence map›Paper›PMID 40217001›Full record

ReviewNature reviews. Chemistry2025

Kinetics and dynamics of oligonucleotide hybridization.

Brennan Ashwood, Andrei Tokmakoff

Abstract readReview
PubMed Publisher
In one paragraph

Review in Nature reviews. Chemistry, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

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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

2 authors.

Brennan AshwoodDepartment of Chemistry, The James Franck Institute, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA. bga2114@columbia.edu.ORCID 0000-0001-7614-6071
Andrei TokmakoffDepartment of Chemistry, The James Franck Institute, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA. tokmakoff@uchicago.edu.ORCID 0000-0002-2434-8744

Funding

The Dynamics of Molecular Recognition by Proteins from 2D IR Spectroscopy and MD SimulationsR01GM118774 · NIGMS · UNIVERSITY OF CHICAGO · PI TOKMAKOFF, ANDREI · 2016 to 2019
$1.6M
National Science Foundation CHE-2155027NIGMS NIH HHS R01 GM118774
6 · The paper itself

Abstract

The hybridization of short nucleic acid strands is a remarkable spontaneous process that is foundational to biotechnology and nanotechnology and plays a crucial role in gene expression, editing and DNA repair. Decades of research into the mechanism of hybridization have resulted in a deep understanding of its thermodynamics, but many questions remain regarding its kinetics and dynamics. Recent advances in experiments and molecular dynamics simulations of nucleic acids are enabling more direct insight into the structural dynamics of hybridization, which can test long-standing assumptions regarding its mechanism. In this Review, we summarize the current state of knowledge of hybridization kinetics, discuss the barriers to a molecular description of hybridization dynamics, and highlight the new approaches that have begun uncovering the dynamics of hybridization and the duplex ensemble. The kinetics and dynamics of hybridization are highly sensitive to the composition of nucleic acids, and we emphasize recent discoveries and open questions on the role of nucleobase sequence and chemical modifications.

Indexed as

Nucleic Acid HybridizationOligonucleotidesKineticsMolecular Dynamics SimulationThermodynamicsOligonucleotides

Identifiers

What OpenQuestion holds

Textmetadata
Read underepoch 390

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.