Niles A. Pierce

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Michael B. GilesProfessor of Scientific Computing, University of OxfordVerified email at maths.ox.ac.uk
Harry M. T. ChoiCEO, Molecular Instruments, Inc.Verified email at molecularinstruments.com
Erik WinfreeCalifornia Institute of TechnologyVerified email at caltech.edu
Scott E FraserUniversity of Southern CaliforniaVerified email at provost.usc.edu
Antony JamesonProfessor of Aerospace Engineering, Texas A&M UniversityVerified email at tamu.edu
Luigi MartinelliPrinceton UniversityVerified email at princeton.edu
Mark FornacePostdoctoral scholar, California Institute of TechnologyVerified email at caltech.edu
Victor A BeckLawrence Livermore National LaboratoryVerified email at llnl.gov
Jens-Dominik MuellerReader, School of Engineering and Materials Science, Queen Mary University of LondonVerified email at qmul.ac.uk
Paul W.K. RothemundCalifornia Institute of TechnologyVerified email at dna.caltech.edu
Nicholas James PorubskyPhD, CaltechVerified email at caltech.edu
Viviana GradinaruProfessor of Neuroscience and Biological Engineering at CaltechVerified email at caltech.edu
Chang Ho SohnAssistant Professor at Yonsei University, KoreaVerified email at yonsei.ac.kr
Ben GordonMIT, Broad Institute of MIT and HarvardVerified email at mit.edu
Andrew SpakowitzStanford UniversityVerified email at stanford.edu
Zhen-Gang WangCalifornia Institute of TechnologyVerified email at caltech.edu
Endre SuliProfessor of Numerical Analysis, University of OxfordVerified email at maths.ox.ac.uk
Adam Z. RosenthalAssistant Professor, UNCVerified email at caltech.edu
Jared R. LeadbetterCalifornia Institute of Technology - PasadenaVerified email at caltech.edu
Jeffrey ViereggSenior Research Scientist, Pritzker School of Molecular Engineering, University of ChicagoVerified email at alum.mit.edu

Niles A. Pierce

Professor of Applied & Computational Mathematics and Bioengineering, California Institute of

Verified email at caltech.edu - Homepage

molecular programming small conditional RNAs analysis and design algorithms quantitative bioimaging


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Triggered amplification by hybridization chain reaction RM Dirks, NA Pierce Proceedings of the National Academy of Sciences of the United States of …, 2004	1661	2004
NUPACK: analysis and design of nucleic acid systems JN Zadeh, CD Steenberg, JS Bois, BR Wolfe, MB Pierce, AR Khan, ... Journal of computational chemistry 32 (1), 170-173, 2011	1451	2011
Programming biomolecular self-assembly pathways P Yin, HMT Choi, CR Calvert, NA Pierce Nature 451 (7176), 318-322, 2008	1421	2008
An introduction to the adjoint approach to design MB Giles, NA Pierce Flow, turbulence and combustion 65 (3-4), 393-415, 2000	1207	2000
Optimum aerodynamic design using the Navier–Stokes equations A Jameson, L Martinelli, NA Pierce Theoretical and computational fluid dynamics 10 (1-4), 213-237, 1998	868	1998
A synthetic DNA walker for molecular transport JS Shin, NA Pierce Journal of the American Chemical Society 126 (35), 10834-10835, 2004	831	2004
Programmable in situ amplification for multiplexed imaging of mRNA expression HMT Choi, JY Chang, LA Trinh, JE Padilla, SE Fraser, NA Pierce Nature biotechnology 28 (11), 1208-1212, 2010	598	2010
Third-generation in situ hybridization chain reaction: multiplexed, quantitative, sensitive, versatile, robust HMT Choi, M Schwarzkopf, ME Fornace, A Acharya, G Artavanis, ... Development 145, doi:10.1242/dev.165753, 2018	572	2018
Next-Generation in Situ Hybridization Chain Reaction: Higher Gain, Lower Cost, Greater Durability HMT Choi, VA Beck, NA Pierce ACS Nano 8 (5), 4284-4294, 2014	506	2014
A partition function algorithm for nucleic acid secondary structure including pseudoknots RM Dirks, NA Pierce Journal of computational chemistry 24 (13), 1664-1677, 2003	434	2003
Thermodynamic analysis of interacting nucleic acid strands RM Dirks, JS Bois, JM Schaeffer, E Winfree, NA Pierce SIAM review 49 (1), 65-88, 2007	393	2007
Algorithm developments for discrete adjoint methods M Giles, MC Duta, JD Müller, NA Pierce AIAA Journal 41 (2), 198-205, 2003	375	2003
Adjoint recovery of superconvergent functionals from PDE approximations NA Pierce, MB Giles SIAM Review 42 (2), 247-264, 2000	352	2000
Adjoint equations in CFD: Duality, boundary conditions and solution behaviour MB Giles, NA Pierce 13th Computational Fluid Dynamics Conference, 1997	350	1997
An autonomous polymerization motor powered by DNA hybridization S Venkataraman, RM Dirks, PWK Rothemund, E Winfree, NA Pierce Nature nanotechnology 2 (8), 490-494, 2007	340	2007
Protein design is NP-hard NA Pierce, E Winfree Protein Engineering 15 (10), 779-782, 2002	304	2002
Paradigms for computational nucleic acid design RM Dirks, M Lin, E Winfree, NA Pierce Nucleic Acids Research 32 (4), 1392-1403, 2004	265	2004
An algorithm for computing nucleic acid base‐pairing probabilities including pseudoknots RM Dirks, NA Pierce Journal of computational chemistry 25 (10), 1295-1304, 2004	226	2004
Nucleic acid sequence design via efficient ensemble defect optimization JN Zadeh, BR Wolfe, NA Pierce Journal of computational chemistry 32 (3), 439-452, 2011	222	2011
Conformational splitting: A more powerful criterion for dead‐end elimination NA Pierce, JA Spriet, J Desmet, SL Mayo Journal of computational chemistry 21 (11), 999-1009, 2000	216	2000

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