Evidence map›Paper›PMID 31084582›Full record

ReviewAnnual review of biophysics2019

Programming Structured DNA Assemblies to Probe Biophysical Processes.

Eike-Christian Wamhoff, James L Banal, William P Bricker, Tyson R Shepherd, Molly F Parsons, Rémi Veneziano, Matthew B Stone, Hyungmin Jun, Xiao Wang, Mark Bathe

Abstract readReview
In one paragraph

Review in Annual review of biophysics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.

0numbers the graph read from it
0cells of the map it votes in
38citing 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

38 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Automated Purification of DNA Origami with SPRI Beads.Small (Weinheim an der Bergstrasse, Germany) · 2024
    Article
  8. Article
  9. Article
  10. Piggybacking functionalized DNA nanostructures into live cell nuclei.bioRxiv : the preprint server for biology · 2024
    Article
  11. Article
  12. Article
  13. Article
  14. 3D RNA-scaffolded wireframe origami.Nature communications · 2023
    Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Planar 2D wireframe DNA origami.Science advances · 2022
    Article
  20. 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

10 authors.

Eike-Christian WamhoffDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
James L BanalDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
William P BrickerDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
Tyson R ShepherdDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
Molly F ParsonsDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
Rémi VenezianoDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
Matthew B StoneDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
Hyungmin JunDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
Xiao WangDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.
Mark BatheDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; email: mark.bathe@mit.edu.

Funding

TOXICOLOGY CORE UNITP30ES002109 · NIEHS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI YAFFE, MICHAEL B · 1985 to 2020
$25.6M
Simultaneous profiling of neuronal synapse activities, proteins, and messenger RNAs at the single-cell levelR01MH112694 · NIMH · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Mark Bathe · 2017 to 2026
$2.8M
Ultra-Multiplexed Nanoscale In Situ Proteomics for Understanding Synapse TypesU01MH106011 · NIMH · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BATHE, MARK, BOYDEN, EDWARD S. · 2014 to 2016
$2.2M
Structured DNA Nanoparticles Therapeutic mRNA and CRISPR/Cas9 DeliveryR21EB026008 · NIBIB · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BATHE, MARK · 2018 to 2021
$796k
NIBIB NIH HHS R21 EB026008NIEHS NIH HHS P30 ES002109NIMH NIH HHS R01 MH112694NIMH NIH HHS U01 MH106011
6 · The paper itself

Abstract

Structural DNA nanotechnology is beginning to emerge as a widely accessible research tool to mechanistically study diverse biophysical processes. Enabled by scaffolded DNA origami in which a long single strand of DNA is weaved throughout an entire target nucleic acid assembly to ensure its proper folding, assemblies of nearly any geometric shape can now be programmed in a fully automatic manner to interface with biology on the 1-100-nm scale. Here, we review the major design and synthesis principles that have enabled the fabrication of a specific subclass of scaffolded DNA origami objects called wireframe assemblies. These objects offer unprecedented control over the nanoscale organization of biomolecules, including biomolecular copy numbers, presentation on convex or concave geometries, and internal versus external functionalization, in addition to stability in physiological buffer. To highlight the power and versatility of this synthetic structural biology approach to probing molecular and cellular biophysics, we feature its application to three leading areas of investigation: light harvesting and nanoscale energy transport, RNA structural biology, and immune receptor signaling, with an outlook toward unique mechanistic insight that may be gained in these areas in the coming decade.

Indexed as

BiomimeticsBiophysicsDNAReceptors, ImmunologicRNASignal TransductionDNAReceptors, ImmunologicRNAcomputational designDNA origamiimmunologylight harvestingnanoscale energy transportnanotechnologyRNA structural biologysynthetic structural biology

Identifiers

PMID31084582
PMCPMC7035826

What OpenQuestion holds

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LicenceTDM
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.