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Title: Fluorescence Color by Data-Driven Design of Genomic Silver Clusters

Authors:
ORCiD logo [1];  [2];  [3];  [2];  [2];  [3]
  1. Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
  2. University at Albany-SUNY, NY (United States)
  3. Univ. of California, Santa Barbara, CA (United States)
Publication Date:
Research Org.:
Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
Sponsoring Org.:
USDOE Office of Science (SC). Basic Energy Sciences (BES) (SC-22); USDOE National Nuclear Security Administration (NNSA); USDOE Laboratory Directed Research and Development (LDRD) Program
OSTI Identifier:
1469548
Alternate Identifier(s):
OSTI ID: 1557780
Report Number(s):
LA-UR-18-21089; LA-UR-18-29957
Journal ID: ISSN 1936-0851
Grant/Contract Number:  
AC52-06NA25396; 89233218CNA000001
Resource Type:
Accepted Manuscript
Journal Name:
ACS Nano
Additional Journal Information:
Journal Volume: 12; Journal Issue: 8; Journal ID: ISSN 1936-0851
Publisher:
American Chemical Society (ACS)
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 97 MATHEMATICS AND COMPUTING; Material Science; DNA; fluorescence; high-throughput; machine learning; metal cluster

Citation Formats

Copp, Stacy Marla, Gorovits, Alexander, Swasey, Steven M., Gudibandi, Sruthi, Bogdanov, Petko, and Gwinn, Elisabeth G. Fluorescence Color by Data-Driven Design of Genomic Silver Clusters. United States: N. p., 2018. Web. doi:10.1021/acsnano.8b03404.
Copp, Stacy Marla, Gorovits, Alexander, Swasey, Steven M., Gudibandi, Sruthi, Bogdanov, Petko, & Gwinn, Elisabeth G. Fluorescence Color by Data-Driven Design of Genomic Silver Clusters. United States. https://doi.org/10.1021/acsnano.8b03404
Copp, Stacy Marla, Gorovits, Alexander, Swasey, Steven M., Gudibandi, Sruthi, Bogdanov, Petko, and Gwinn, Elisabeth G. Mon . "Fluorescence Color by Data-Driven Design of Genomic Silver Clusters". United States. https://doi.org/10.1021/acsnano.8b03404. https://www.osti.gov/servlets/purl/1469548.
@article{osti_1469548,
title = {Fluorescence Color by Data-Driven Design of Genomic Silver Clusters},
author = {Copp, Stacy Marla and Gorovits, Alexander and Swasey, Steven M. and Gudibandi, Sruthi and Bogdanov, Petko and Gwinn, Elisabeth G.},
abstractNote = {},
doi = {10.1021/acsnano.8b03404},
journal = {ACS Nano},
number = 8,
volume = 12,
place = {United States},
year = {Mon Jul 30 00:00:00 EDT 2018},
month = {Mon Jul 30 00:00:00 EDT 2018}
}

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Free Publicly Available Full Text
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Cited by: 40 works
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Works referenced in this record:

The enabled state of DNA nanotechnology
journal, August 2013


Structural DNA Nanotechnology: State of the Art and Future Perspective
journal, July 2014

  • Zhang, Fei; Nangreave, Jeanette; Liu, Yan
  • Journal of the American Chemical Society, Vol. 136, Issue 32
  • DOI: 10.1021/ja505101a

DNA-based self-assembly of chiral plasmonic nanostructures with tailored optical response
journal, March 2012

  • Kuzyk, Anton; Schreiber, Robert; Fan, Zhiyuan
  • Nature, Vol. 483, Issue 7389
  • DOI: 10.1038/nature10889

Programmable motion of DNA origami mechanisms
journal, January 2015

  • Marras, Alexander E.; Zhou, Lifeng; Su, Hai-Jun
  • Proceedings of the National Academy of Sciences, Vol. 112, Issue 3
  • DOI: 10.1073/pnas.1408869112

A Hybrid DNA-Templated Gold Nanocluster For Enhanced Enzymatic Reduction of Oxygen
journal, September 2015

  • Chakraborty, Saumen; Babanova, Sofia; Rocha, Reginaldo C.
  • Journal of the American Chemical Society, Vol. 137, Issue 36
  • DOI: 10.1021/jacs.5b05338

DNA-Protected Silver Clusters for Nanophotonics
journal, February 2015

  • Gwinn, Elisabeth; Schultz, Danielle; Copp, Stacy
  • Nanomaterials, Vol. 5, Issue 1
  • DOI: 10.3390/nano5010180

DNA-Hosted Copper Nanoclusters for Fluorescent Identification of Single Nucleotide Polymorphisms
journal, March 2012


Sequence-Dependent Fluorescence of DNA-Hosted Silver Nanoclusters
journal, January 2008

  • Gwinn, E. G.; O'Neill, P.; Guerrero, A. J.
  • Advanced Materials, Vol. 20, Issue 2, p. 279-283
  • DOI: 10.1002/adma.200702380

Evidence for Rod-Shaped DNA-Stabilized Silver Nanocluster Emitters
journal, February 2013

  • Schultz, Danielle; Gardner, Kira; Oemrawsingh, Sumant S. R.
  • Advanced Materials, Vol. 25, Issue 20
  • DOI: 10.1002/adma.201204624

Ten-Atom Silver Cluster Signaling and Tempering DNA Hybridization
journal, May 2015


A Fluorescence Light-Up Ag Nanocluster Probe That Discriminates Single-Nucleotide Variants by Emission Color
journal, July 2012

  • Yeh, Hsin-Chih; Sharma, Jaswinder; Shih, Ie-Ming
  • Journal of the American Chemical Society, Vol. 134, Issue 28
  • DOI: 10.1021/ja3024737

Design Aspects of Bright Red Emissive Silver Nanoclusters/DNA Probes for MicroRNA Detection
journal, September 2012

  • Shah, Pratik; Rørvig-Lund, Andreas; Chaabane, Samir Ben
  • ACS Nano, Vol. 6, Issue 10
  • DOI: 10.1021/nn302633q

DNA-stabilized, fluorescent, metal nanoclusters for biosensor development
journal, June 2014


Commentary: The Materials Project: A materials genome approach to accelerating materials innovation
journal, July 2013

  • Jain, Anubhav; Ong, Shyue Ping; Hautier, Geoffroy
  • APL Materials, Vol. 1, Issue 1
  • DOI: 10.1063/1.4812323

Perspective: Codesign for materials science: An optimal learning approach
journal, April 2016

  • Lookman, Turab; Alexander, Francis J.; Bishop, Alan R.
  • APL Materials, Vol. 4, Issue 5
  • DOI: 10.1063/1.4944627

Accelerating materials property predictions using machine learning
journal, September 2013

  • Pilania, Ghanshyam; Wang, Chenchen; Jiang, Xun
  • Scientific Reports, Vol. 3, Issue 1
  • DOI: 10.1038/srep02810

Base Motif Recognition and Design of DNA Templates for Fluorescent Silver Clusters by Machine Learning
journal, July 2014

  • Copp, Stacy M.; Bogdanov, Petko; Debord, Mark
  • Advanced Materials, Vol. 26, Issue 33
  • DOI: 10.1002/adma.201401402

Big Data of Materials Science: Critical Role of the Descriptor
journal, March 2015


Accelerated search for materials with targeted properties by adaptive design
journal, April 2016

  • Xue, Dezhen; Balachandran, Prasanna V.; Hogden, John
  • Nature Communications, Vol. 7, Issue 1
  • DOI: 10.1038/ncomms11241

Accelerated Discovery of Large Electrostrains in BaTiO 3 -Based Piezoelectrics Using Active Learning
journal, January 2018

  • Yuan, Ruihao; Liu, Zhen; Balachandran, Prasanna V.
  • Advanced Materials, Vol. 30, Issue 7
  • DOI: 10.1002/adma.201702884

Mapping membrane activity in undiscovered peptide sequence space using machine learning
journal, November 2016

  • Lee, Ernest Y.; Fulan, Benjamin M.; Wong, Gerard C. L.
  • Proceedings of the National Academy of Sciences, Vol. 113, Issue 48
  • DOI: 10.1073/pnas.1609893113

Magic Numbers in DNA-Stabilized Fluorescent Silver Clusters Lead to Magic Colors
journal, March 2014

  • Copp, Stacy M.; Schultz, Danielle; Swasey, Steven
  • The Journal of Physical Chemistry Letters, Vol. 5, Issue 6
  • DOI: 10.1021/jz500146q

Identifying discriminative classification-based motifs in biological sequences
journal, March 2011


Stabilization of fluorescent silver clusters by RNA homopolymers and their DNA analogs: C,G versus A,T(U) dichotomy
journal, January 2011

  • Schultz, Danielle; Gwinn, Elisabeth
  • Chemical Communications, Vol. 47, Issue 16
  • DOI: 10.1039/c0cc05061j

Heterogeneous Solvatochromism of Fluorescent DNA-Stabilized Silver Clusters Precludes Use of Simple Onsager-Based Stokes Shift Models
journal, February 2016

  • Copp, Stacy M.; Faris, Alexis; Swasey, Steven M.
  • The Journal of Physical Chemistry Letters, Vol. 7, Issue 4
  • DOI: 10.1021/acs.jpclett.5b02777

Learning from Imbalanced Data
journal, September 2009

  • Haibo He, ; Garcia, E. A.
  • IEEE Transactions on Knowledge and Data Engineering, Vol. 21, Issue 9
  • DOI: 10.1109/TKDE.2008.239

The class imbalance problem: A systematic study1
journal, November 2002

  • Japkowicz, Nathalie; Stephen, Shaju
  • Intelligent Data Analysis, Vol. 6, Issue 5
  • DOI: 10.3233/IDA-2002-6504

Learning from imbalanced data: open challenges and future directions
journal, April 2016


The WEKA data mining software: an update
journal, November 2009

  • Hall, Mark; Frank, Eibe; Holmes, Geoffrey
  • ACM SIGKDD Explorations Newsletter, Vol. 11, Issue 1
  • DOI: 10.1145/1656274.1656278

LIBSVM: A library for support vector machines
journal, April 2011

  • Chang, Chih-Chung; Lin, Chih-Jen
  • ACM Transactions on Intelligent Systems and Technology, Vol. 2, Issue 3
  • DOI: 10.1145/1961189.1961199

Inferring low-dimensional microstructure representations using convolutional neural networks
journal, November 2017


Silver (I) as DNA glue: Ag+-mediated guanine pairing revealed by removing Watson-Crick constraints
journal, May 2015

  • Swasey, Steven M.; Leal, Leonardo Espinosa; Lopez-Acevedo, Olga
  • Scientific Reports, Vol. 5, Issue 1
  • DOI: 10.1038/srep10163

Silver-mediated base pairings: towards dynamic DNA nanostructures with enhanced chemical and thermal stability
journal, April 2016


Statistics, damned statistics and nanoscience – using data science to meet the challenge of nanomaterial complexity
journal, January 2016

  • Sun, Baichuan; Fernandez, Michael; Barnard, Amanda S.
  • Nanoscale Horizons, Vol. 1, Issue 2
  • DOI: 10.1039/C5NH00126A

Works referencing / citing this record:

Deep Learning Accelerated Gold Nanocluster Synthesis
journal, July 2019

  • Li, Jiali; Chen, Tiankai; Lim, Kaizhuo
  • Advanced Intelligent Systems, Vol. 1, Issue 3
  • DOI: 10.1002/aisy.201900029

High throughput near infrared screening discovers DNA-templated silver clusters with peak fluorescence beyond 950 nm
journal, January 2018

  • Swasey, Steven M.; Copp, Stacy M.; Nicholson, Hunter C.
  • Nanoscale, Vol. 10, Issue 42
  • DOI: 10.1039/c8nr05781h

Adaptation of a visible wavelength fluorescence microplate reader for discovery of near-infrared fluorescent probes
journal, September 2018

  • Swasey, Steven M.; Nicholson, Hunter C.; Copp, Stacy M.
  • Review of Scientific Instruments, Vol. 89, Issue 9
  • DOI: 10.1063/1.5023258

Crystal structure of a NIR‐Emitting DNA‐Stabilized Ag 16 Nanocluster
journal, November 2019

  • Cerretani, Cecilia; Kanazawa, Hiroki; Vosch, Tom
  • Angewandte Chemie, Vol. 131, Issue 48
  • DOI: 10.1002/ange.201906766

Crystal structure of a NIR‐Emitting DNA‐Stabilized Ag 16 Nanocluster
journal, November 2019

  • Cerretani, Cecilia; Kanazawa, Hiroki; Vosch, Tom
  • Angewandte Chemie International Edition, Vol. 58, Issue 48
  • DOI: 10.1002/anie.201906766

Increasing the optical response of TiO 2 and extending it into the visible region through surface activation with highly stable Cu 5 clusters
journal, January 2019

  • Pilar de Lara-Castells, María; Hauser, Andreas W.; Ramallo-López, José M.
  • Journal of Materials Chemistry A, Vol. 7, Issue 13
  • DOI: 10.1039/c9ta00994a

Switchable Dual-Emissive DNA-Stabilized Silver Nanoclusters
journal, April 2019


First Step Towards Larger DNA-Based Assemblies of Fluorescent Silver Nanoclusters: Template Design and Detailed Characterization of Optical Properties
journal, April 2019

  • Yourston, Liam E.; Lushnikov, Alexander Y.; Shevchenko, Oleg A.
  • Nanomaterials, Vol. 9, Issue 4
  • DOI: 10.3390/nano9040613