Evidence map›Paper›PMID 29669419›Full record

ArticleLangmuir : the ACS journal of surfaces and colloids2018

Dynamic Behavior of RNA Nanoparticles Analyzed by AFM on a Mica/Air Interface.

Sameer Sajja, Morgan Chandler, Dmitry Fedorov, Wojciech K Kasprzak, Alexander Lushnikov, Mathias Viard, Ankit Shah, Dylan Dang, Jared Dahl, Beamlak Worku and 4 more

Abstract read
In one paragraph

Article in Langmuir : the ACS journal of surfaces and colloids, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.

0numbers the graph read from it
0cells of the map it votes in
31citing 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

31 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

14 authors.

Sameer Sajja
Morgan Chandler
Dmitry FedorovViQi Inc., Santa Barbara , California 93109 , United States.
Wojciech K Kasprzak
Alexander LushnikovNanoimaging Core Facility at the University of Nebraska Medical Center , Omaha , Nebraska 68198 , United States.
Mathias Viard
Ankit ShahNanotechnology Characterization Laboratory , Cancer Research Technology Program, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research , Frederick , Maryland 21702 , United States.
Dylan Dang
Jared Dahl
Beamlak Worku
Marina A DobrovolskaiaNanotechnology Characterization Laboratory , Cancer Research Technology Program, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research , Frederick , Maryland 21702 , United States.
Alexey KrasnoslobodtsevNanoimaging Core Facility at the University of Nebraska Medical Center , Omaha , Nebraska 68198 , United States.
Bruce A Shapiro

Funding

Computational RNA NanodesignZIABC011061 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI SHAPIRO, BRUCE · 2009 to 2021
$12.3M
Computational Approaches for RNA StructureFunction DeterminationZIABC008382 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI SHAPIRO, BRUCE · 2009 to 2021
$5.8M
Characterization of various multifunctional nucleic acid nanoparticles and understanding their immunotoxicityR01GM120487 · NIGMS · UNIVERSITY OF NORTH CAROLINA CHARLOTTE · PI AFONIN, KIRILL A · 2017 to 2020
$1.5M
COMPUTER ANALYSIS OF NUCLEIC ACID STRUCTUREZ01BC008382 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI SHAPIRO, BRUCE A. · 1996 to 2008
$1.2M
CCR NIH HHS HHSN261200800001CIntramural NIH HHS Z01 BC008382Intramural NIH HHS Z99 CA999999NCI NIH HHS HHSN261200800001ENIGMS NIH HHS R01 GM120487NULL Z01 BC008382-24NULL Z99 CA999999
6 · The paper itself

Abstract

RNA is an attractive biopolymer for engineering self-assembling materials suitable for biomedical applications. Previously, programmable hexameric RNA rings were developed for the controlled delivery of up to six different functionalities. To increase the potential for functionalization with little impact on nanoparticle topology, we introduce gaps into the double-stranded regions of the RNA rings. Molecular dynamic simulations are used to assess the dynamic behavior and the changes in the flexibility of novel designs. The changes suggested by simulations, however, cannot be clearly confirmed by the conventional techniques such as nondenaturing polyacrylamide gel electrophoresis (native-PAGE) and dynamic light scattering (DLS). Also, an in vitro analysis in primary cultures of human peripheral blood mononuclear cells does not reveal any discrepancy in the immunological recognition of new assemblies. To address these deficiencies, we introduce a computer-assisted quantification strategy. This strategy is based on an algorithmic atomic force microscopy (AFM)-resolved deformation analysis of the RNA nanoparticles studied on a mica/air interface. We validate this computational method by manual image analysis and fitting it to the simulation-predicted results. The presented nanoparticle modification strategy and subsequent AFM-based analysis are anticipated to provide a broad spectrum approach for the future development of nucleic acid-based nanotechnology.

Indexed as

AirAluminum SilicatesCell Line, TumorHumansLeukocytes, MononuclearMicroscopy, Atomic ForceMolecular Dynamics SimulationNanoparticlesNucleic Acid ConformationPliabilityRNAAluminum SilicatesmicaRNA

Identifiers

PMID29669419
PMCPMC6207479

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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.