@article{https://authors.library.caltech.edu/records/5tqf9-jve59,
    authors = "Schulte, Samuel J. and Shin, Boyoung and Rothenberg, Ellen V. and Pierce, Niles A.",
    title = "Multiplex, Quantitative, High-Resolution Imaging of Protein:Protein Complexes via Hybridization Chain Reaction",
    journal = "ACS Chemical Biology",
    publisher = "American Chemical Society",
    year = "2024",
    url = "https://authors.library.caltech.edu/records/5tqf9-jve59",
    id = "https://authors.library.caltech.edu/records/5tqf9-jve59",
    issn = "1554-8929",
    doi = "10.1021/acschembio.3c00431",
    volume = "19",
    number = "2",
    pmcid = "PMC10877569",
    pages = "280-288"
}


@article{https://authors.library.caltech.edu/records/7a6aa-kw759,
    authors = "Schulte, Samuel J. and Shin, Boyoung and Rothenberg, Ellen V. and Pierce, Niles A.",
    title = "Multiplex, Quantitative, High-Resolution Imaging of Protein:Protein Complexes via Hybridization Chain Reaction",
    journal = "ACS Chemical Biology",
    publisher = "American Chemical Society",
    year = "2024",
    url = "https://authors.library.caltech.edu/records/7a6aa-kw759",
    id = "https://authors.library.caltech.edu/records/7a6aa-kw759",
    issn = "1554-8929",
    doi = "10.1021/acschembio.3c00431"
}


@article{https://authors.library.caltech.edu/records/3m90d-t8880,
    authors = "Schulte, Samuel J. and Huang, Jining and Pierce, Niles A.",
    title = "Hybridization Chain Reaction Lateral Flow Assays for Amplified Instrument-Free At-Home SARS-CoV-2 Testing",
    journal = "ACS Infectious Diseases",
    publisher = "American Chemical Society",
    year = "2023",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20230227-258668000.1",
    id = "https://authors.library.caltech.edu/records/3m90d-t8880",
    issn = "2373-8227",
    doi = "10.1021/acsinfecdis.2c00472",
    volume = "9",
    number = "3",
    pmcid = "PMC9924079",
    pages = "450-458"
}


@article{https://authors.library.caltech.edu/records/39q5c-bdj22,
    authors = "Bokhari, Rihana S. and Beheshti, Afshin and Blutt, Sarah E. and Bowles, Dawn E. and Brenner, David and Britton, Robert and Bronk, Lawrence and Cao, Xu and Chatterjee, Anushree and Clay, Delisa E. and Courtney, Colleen and Fox, Donald T. and Gaber, M. Waleed and Gerecht, Sharon and Grabham, Peter and Grosshans, David and Guan, Fada and Jezuit, Erin A. and Kirsch, David G. and Liu, Zhandong and Maletic-Savatic, Mirjana and Miller, Kyle M. and Montague, Ruth A. and Nagpal, Prashant and Osenberg, Sivan and Parkitny, Luke and Pierce, Niles A. and Porada, Christopher and Rosenberg, Susan M. and Sargunas, Paul and Sharma, Sadhana and Spangler, Jamie and Tavakol, Daniel Naveed and Thomas, Dilip and Vunjak-Novakovic, Gordana and Wang, Chunbo and Whitcomb, Luke and Young, Damian W. and Donoviel, Dorit",
    title = "Looking on the Horizon; Potential and Unique Approaches to Developing Radiation Countermeasures for Deep Space Travel",
    journal = "Life Sciences in Space Research",
    publisher = "Elsevier",
    year = "2022",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20220808-223919000",
    id = "https://authors.library.caltech.edu/records/39q5c-bdj22",
    issn = "2214-5524",
    doi = "10.1016/j.lssr.2022.08.003",
    volume = "35",
    pages = "105-112"
}


@article{https://authors.library.caltech.edu/records/asrnc-fp324,
    authors = "Schwarzkopf, Maayan and Liu, Mike C. and Schulte, Samuel J. and Ives, Rachel and Husain, Naeem and Choi, Harry M. T. and Pierce, Niles A.",
    title = "Hybridization chain reaction enables a unified approach to multiplexed, quantitative, high-resolution immunohistochemistry and in situ hybridization",
    journal = "Development",
    publisher = "Company of Biologists",
    year = "2021",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20210604-111535359",
    id = "https://authors.library.caltech.edu/records/asrnc-fp324",
    issn = "0950-1991",
    doi = "10.1242/dev.199847",
    volume = "148",
    number = "22",
    pmcid = "PMC8645210",
    pages = "Art. No. dev199847"
}


@article{https://authors.library.caltech.edu/records/a2er1-3qv71,
    authors = "Hochrein, Lisa M. and Li, Heyun and Pierce, Niles A.",
    title = "High-Performance Allosteric Conditional Guide RNAs for Mammalian Cell-Selective Regulation of CRISPR/Cas",
    journal = "ACS Synthetic Biology",
    publisher = "American Chemical Society",
    year = "2021",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20210503-115702708",
    id = "https://authors.library.caltech.edu/records/a2er1-3qv71",
    issn = "2161-5063",
    doi = "10.1021/acssynbio.1c00037",
    volume = "10",
    number = "5",
    pages = "964-971"
}


@article{https://authors.library.caltech.edu/records/vb193-kag88,
    authors = "Fornace, Mark E. and Porubsky, Nicholas J. and Pierce, Niles A.",
    title = "A Unified Dynamic Programming Framework for the Analysis of Interacting Nucleic Acid Strands: Enhanced Models, Scalability, and Speed",
    journal = "ACS Synthetic Biology",
    publisher = "American Chemical Society",
    year = "2020",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20200911-133138429",
    id = "https://authors.library.caltech.edu/records/vb193-kag88",
    issn = "2161-5063",
    doi = "10.1021/acssynbio.9b00523",
    volume = "9",
    number = "10",
    pages = "2665-2678"
}


@article{https://authors.library.caltech.edu/records/x8rgk-9ze64,
    authors = "Hanewich-Hollatz, Mikhail H. and Chen, Zhewei and Hochrein, Lisa M. and Huang, Jining and Pierce, Niles A.",
    title = "Conditional Guide RNAs: Programmable Conditional Regulation of CRISPR/Cas Function in Bacterial and Mammalian Cells via Dynamic RNA Nanotechnology",
    journal = "ACS Central Science",
    publisher = "American Chemical Society",
    year = "2019",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20190123-124341981",
    id = "https://authors.library.caltech.edu/records/x8rgk-9ze64",
    issn = "2374-7943",
    doi = "10.1021/acscentsci.9b00340",
    volume = "5",
    number = "7",
    pmcid = "PMC6661866",
    pages = "1241-1249"
}


@article{https://authors.library.caltech.edu/records/cve86-hd485,
    authors = "Hochrein, Lisa M. and Ge, Tianjia J. and Schwarzkopf, Maayan and Pierce, Niles A.",
    title = "Signal Transduction in Human Cell Lysate via Dynamic RNA Nanotechnology",
    journal = "ACS Synthetic Biology",
    publisher = "American Chemical Society",
    year = "2018",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20181030-075958683",
    id = "https://authors.library.caltech.edu/records/cve86-hd485",
    issn = "2161-5063",
    doi = "10.1021/acssynbio.8b00424",
    volume = "7",
    number = "12",
    pmcid = "PMC6305621",
    pages = "2796-2802"
}


@article{https://authors.library.caltech.edu/records/ajq80-4k145,
    authors = "Choi, Harry M. T. and Schwarzkopf, Maayan and Fornace, Mark E. and Acharya, Aneesh and Artavanis, Georgios and Stegmaier, Johannes and Cunha, Alexandre and Pierce, Niles A.",
    title = "Third-generation in situ hybridization chain reaction: multiplexed, quantitative, sensitive, versatile, robust",
    journal = "Development",
    publisher = "Company of Biologists",
    year = "2018",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20180702-084055324",
    id = "https://authors.library.caltech.edu/records/ajq80-4k145",
    issn = "0950-1991",
    doi = "10.1242/dev.165753",
    volume = "145",
    number = "12",
    pmcid = "PMC6031405",
    pages = "Art. No. dev165753"
}


@article{https://authors.library.caltech.edu/records/40g1k-fmd49,
    authors = "Trivedi, Vikas and Choi, Harry M. T. and Fraser, Scott E. and Pierce, Niles A.",
    title = "Multidimensional quantitative analysis of mRNA expression within intact vertebrate embryos",
    journal = "Development",
    publisher = "Company of Biologists",
    year = "2018",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20180110-083122477",
    id = "https://authors.library.caltech.edu/records/40g1k-fmd49",
    issn = "0950-1991",
    doi = "10.1242/dev.156869",
    volume = "145",
    number = "1",
    pmcid = "PMC5825878",
    pages = "Art. No. 156869"
}


@article{https://authors.library.caltech.edu/records/cf282-ajq30,
    authors = "Wolfe, Brian R. and Porubsky, Nicholas J. and Zadeh, Joseph N. and Dirks, Robert M. and Pierce, Niles A.",
    title = "Constrained Multistate Sequence Design for Nucleic Acid Reaction Pathway Engineering",
    journal = "Journal of the American Chemical Society",
    publisher = "American Chemical Society",
    year = "2017",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20170213-164458132",
    id = "https://authors.library.caltech.edu/records/cf282-ajq30",
    issn = "0002-7863",
    doi = "10.1021/jacs.6b12693",
    volume = "139",
    number = "8",
    pages = "3134-3144"
}


@article{https://authors.library.caltech.edu/records/z27p8-phb40,
    authors = "Choi, Harry M. T. and Calvert, Colby R. and Husain, Naeem and Barsi, Julius C. and Deverman, Benjamin E. and Hunter, Ryan C. and Kato, Mihoko and Lee, S. Melanie and Abelin, Anna C. T. and Rosenthal, Adam Z. and Akbari, Omar S. and Li, Yuwei and Hay, Bruce A. and Sternberg, Paul W. and Patterson, Paul H. and Davidson, Eric H. and Mazmanian, Sarkis K. and Prober, David A. and Leadbetter, Jared R. and Newman, Dianne K. and Readhead, Carol and Bronner, Marianne E. and Wold, Barbara and Fraser, Scott E. and Pierce, Niles A.",
    title = "Mapping a multiplexed zoo of mRNA expression",
    journal = "Development",
    publisher = "Company of Biologists",
    year = "2016",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20161011-070233463",
    id = "https://authors.library.caltech.edu/records/z27p8-phb40",
    issn = "0950-1991",
    doi = "10.1242/dev.140137",
    volume = "143",
    number = "19",
    pmcid = "PMC5087610",
    pages = "3632-3637"
}


@article{https://authors.library.caltech.edu/records/kb83q-ax736,
    authors = "Schwarzkopf, Maayan and Pierce, Niles A.",
    title = "Multiplexed miRNA northern blots via hybridization chain reaction",
    journal = "Nucleic Acids Research",
    publisher = "Oxford University Press",
    year = "2016",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20160610-141528257",
    id = "https://authors.library.caltech.edu/records/kb83q-ax736",
    issn = "0305-1048",
    doi = "10.1093/nar/gkw503",
    volume = "44",
    number = "15",
    pmcid = "PMC5009741",
    pages = "Art. No. e129"
}


@article{https://authors.library.caltech.edu/records/npxan-57878,
    authors = "Shah, Sheel and Lubeck, Eric and Schwarzkopf, Maayan and He, Ting-Fang and Greenbaum, Alon and Sohn, Chang Ho and Lignell, Antti and Choi, Harry M. T. and Gradinaru, Viviana and Pierce, Niles A. and Cai, Long",
    title = "Single-molecule RNA detection at depth via hybridization chain reaction and tissue hydrogel embedding and clearing",
    journal = "Development",
    publisher = "Company of Biologists",
    year = "2016",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20160628-085406782",
    id = "https://authors.library.caltech.edu/records/npxan-57878",
    issn = "0950-1991",
    doi = "10.1242/dev.138560",
    volume = "143",
    number = "15",
    pmcid = "PMC5004914",
    pages = "2862-2867"
}


@article{https://authors.library.caltech.edu/records/n709a-71e77,
    authors = "Wolfe, Brian R. and Pierce, Niles A.",
    title = "Sequence Design for a Test Tube of Interacting Nucleic Acid Strands",
    journal = "ACS Synthetic Biology",
    publisher = "American Chemical Society",
    year = "2015",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20141027-090434819",
    id = "https://authors.library.caltech.edu/records/n709a-71e77",
    issn = "2161-5063",
    doi = "10.1021/sb5002196",
    volume = "4",
    number = "10",
    pages = "1086-1100"
}


@article{https://authors.library.caltech.edu/records/6q91n-k5j39,
    authors = "Huss, David and Choi, Harry M. T. and Readhead, Carol and Fraser, Scott E. and Pierce, Niles A. and Lansford, Rusty",
    title = "Combinatorial Analysis of mRNA Expression Patterns in Mouse Embryos Using Hybridization Chain Reaction",
    journal = "Cold Spring Harbor Protocols",
    publisher = "Cold Spring Harbor Laboratory Press",
    year = "2015",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20150311-133810360",
    id = "https://authors.library.caltech.edu/records/6q91n-k5j39",
    issn = "1940-3402",
    doi = "10.1101/pdb.prot083832",
    volume = "2015",
    number = "3",
    pages = "259-268"
}


@article{https://authors.library.caltech.edu/records/qt7v1-3kd06,
    authors = "Choi, Harry M. T. and Beck, Victor A. and Pierce, Niles A.",
    title = "Multiplexed In Situ Hybridization Using Hybridization Chain Reaction",
    journal = "Zebrafish",
    publisher = "Mary Ann Liebert",
    year = "2014",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20141013-100900538",
    id = "https://authors.library.caltech.edu/records/qt7v1-3kd06",
    issn = "1557-8542",
    doi = "10.1089/zeb.2014.1501",
    volume = "11",
    number = "5",
    pages = "488-489"
}


@article{https://authors.library.caltech.edu/records/kqp47-zk188,
    authors = "Sternberg, Jonathan B. and Pierce, Niles A.",
    title = "Exquisite Sequence Selectivity with Small Conditional RNAs",
    journal = "Nano Letters",
    publisher = "American Chemical Society",
    year = "2014",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20140919-101701968",
    id = "https://authors.library.caltech.edu/records/kqp47-zk188",
    issn = "1530-6984",
    doi = "10.1021/nl501593r",
    volume = "14",
    number = "8",
    pmcid = "PMC4134187",
    pages = "4568-4572"
}


@article{https://authors.library.caltech.edu/records/kwrmg-rgg16,
    authors = "Choi, Harry M. T. and Beck, Victor A. and Pierce, Niles A.",
    title = "Next-Generation in Situ Hybridization Chain Reaction: Higher Gain, Lower Cost, Greater Durability",
    journal = "ACS Nano",
    publisher = "American Chemical Society",
    year = "2014",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20140414-095156294",
    id = "https://authors.library.caltech.edu/records/kwrmg-rgg16",
    issn = "1936-0851",
    doi = "10.1021/nn405717p",
    volume = "8",
    number = "5",
    pmcid = "PMC4046802",
    pages = "4284-4294"
}


@article{https://authors.library.caltech.edu/records/gp5mn-eqt33,
    authors = "Sadowski, John P. and Calvert, Colby R. and Zhang, David Yu and Pierce, Niles A. and Yin, Peng",
    title = "Developmental Self-Assembly of a DNA Tetrahedron",
    journal = "ACS Nano",
    publisher = "American Chemical Society",
    year = "2014",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20140603-072449619",
    id = "https://authors.library.caltech.edu/records/gp5mn-eqt33",
    issn = "1936-0851",
    doi = "10.1021/nn4038223",
    volume = "8",
    number = "4",
    pmcid = "PMC4004324",
    pages = "3251-3259"
}


@article{https://authors.library.caltech.edu/records/ajazg-b8730,
    authors = "Vieregg, Jeffrey and Pierce, Niles A.",
    title = "Selective Nucleic Acid Capture with Shielded Covalent Probes",
    journal = "Biophysical Journal",
    publisher = "Biophysical Society",
    year = "2014",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20140710-084440757",
    id = "https://authors.library.caltech.edu/records/ajazg-b8730",
    issn = "0006-3495",
    doi = "10.1016/j.bpj.2013.11.3412",
    volume = "106",
    number = "2",
    pages = "617A"
}


@article{https://authors.library.caltech.edu/records/dv4kn-2cd65,
    authors = "Hochrein, Lisa M. and Schwarzkopf, Maayan and Shahgholi, Mona and Yin, Peng and Pierce, Niles A.",
    title = "Conditional Dicer Substrate Formation via Shape and Sequence Transduction with Small Conditional RNAs",
    journal = "Journal of the American Chemical Society",
    publisher = "American Chemical Society",
    year = "2013",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20131205-083955291",
    id = "https://authors.library.caltech.edu/records/dv4kn-2cd65",
    issn = "0002-7863",
    doi = "10.1021/ja404676x",
    volume = "135",
    number = "46",
    pmcid = "PMC3842090",
    pages = "17322-17330"
}


@article{https://authors.library.caltech.edu/records/fhsqc-n4455,
    authors = "Rosenthal, Adam Z. and Zhang, Xinning and Lucey, Kaitlyn S. and Ottesen, Elizabeth A. and Trivedi, Vikas and Choi, Harry M. T. and Pierce, Niles A. and Leadbetter, Jared R.",
    title = "Localizing transcripts to single cells suggests an important role of uncultured deltaproteobacteria in the termite gut hydrogen economy",
    journal = "Proceedings of the National Academy of Sciences of the United States of America",
    publisher = "National Academy of Sciences",
    year = "2013",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20130930-102728287",
    id = "https://authors.library.caltech.edu/records/fhsqc-n4455",
    issn = "0027-8424",
    doi = "10.1073/pnas.1307876110",
    volume = "110",
    number = "40",
    pmcid = "PMC3791709",
    pages = "16163-16168"
}


@article{https://authors.library.caltech.edu/records/zs90w-qqg50,
    authors = "Vieregg, Jeffrey R. and Nelson, Hosea M. and Stoltz, Brian M. and Pierce, Niles A.",
    title = "Selective Nucleic Acid Capture with Shielded Covalent Probes",
    journal = "Journal of the American Chemical Society",
    publisher = "American Chemical Society",
    year = "2013",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20130905-155148025",
    id = "https://authors.library.caltech.edu/records/zs90w-qqg50",
    issn = "0002-7863",
    doi = "10.1021/ja4009216",
    volume = "135",
    number = "26",
    pmcid = "PMC3703666",
    pages = "9691-9699"
}


@article{https://authors.library.caltech.edu/records/z8p9y-x3037,
    authors = "Vieregg, Jeffrey R. and Pierce, Niles A.",
    title = "Selective Oligonucleotide and MRNA Pull-Down with Shielded Covalent Probes",
    journal = "Biophysical Journal",
    publisher = "Biophysical Society",
    year = "2013",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20130501-084442039",
    id = "https://authors.library.caltech.edu/records/z8p9y-x3037",
    issn = "0006-3495",
    doi = "10.1016/j.bpj.2012.11.2761",
    volume = "104",
    number = "2",
    pages = "500A"
}


@article{https://authors.library.caltech.edu/records/wn6ek-n1t57,
    authors = "Zadeh, Joseph N. and Wolfe, Brian R. and Pierce, Niles A.",
    title = "Nucleic Acid Sequence Design via Efficient Ensemble Defect Optimization",
    journal = "Journal of Computational Chemistry",
    publisher = "Wliey",
    year = "2011",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20110202-095344276",
    id = "https://authors.library.caltech.edu/records/wn6ek-n1t57",
    issn = "0192-8651",
    doi = "10.1002/jcc.21633",
    volume = "32",
    number = "3",
    pages = "439-452"
}


@article{https://authors.library.caltech.edu/records/snc1d-q2h93,
    authors = "Zadeh, Joseph N. and Steenberg, Conrad D. and Bois, Justin S. and Wolfe, Brian R. and Pierce, Marshall B. and Khan, Asif R. and Dirks, Robert M. and Pierce, Niles A.",
    title = "NUPACK: Analysis and design of nucleic acid systems",
    journal = "Journal of Computational Chemistry",
    publisher = "Wliey",
    year = "2011",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20170224-152102280",
    id = "https://authors.library.caltech.edu/records/snc1d-q2h93",
    issn = "0192-8651",
    doi = "10.1002/jcc.21596",
    volume = "32",
    number = "1",
    pages = "170-173"
}


@article{https://authors.library.caltech.edu/records/c9mgf-qpp64,
    authors = "Choi, Harry M. T. and Chang, Joann Y. and Trinh, Le A. and Padilla, Jennifer E. and Fraser, Scott E. and Pierce, Niles A.",
    title = "Programmable in situ amplification for multiplexed imaging of mRNA expression",
    journal = "Nature Biotechnology",
    publisher = "Nature Publishing Group",
    year = "2010",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20160112-090928317",
    id = "https://authors.library.caltech.edu/records/c9mgf-qpp64",
    issn = "1087-0156",
    doi = "10.1038/nbt.1692",
    volume = "28",
    number = "11",
    pmcid = "PMC3058322",
    pages = "1208-1212"
}


@article{https://authors.library.caltech.edu/records/kb09r-hq367,
    authors = "Yin, Peng and Choi, Harry M. T. and Calvert, Colby R. and Pierce, Niles A.",
    title = "Programming biomolecular self-assembly pathways",
    journal = "Nature",
    publisher = "Nature Publishing Group",
    year = "2008",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20170224-143742507",
    id = "https://authors.library.caltech.edu/records/kb09r-hq367",
    issn = "0028-0836",
    doi = "10.1038/nature06451",
    volume = "451",
    number = "7176",
    pages = "318-322"
}


@article{https://authors.library.caltech.edu/records/nmff2-tmc40,
    authors = "Venkataraman, Suvir and Dirks, Robert M. and Rothemund, Paul W. K. and Winfree, Erik and Pierce, Niles A.",
    title = "An autonomous polymerization motor powered by DNA hybridization",
    journal = "Nature Nanotechnology",
    publisher = "Nature Publishing Group",
    year = "2007",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20110216-154211699",
    id = "https://authors.library.caltech.edu/records/nmff2-tmc40",
    issn = "1748-3387",
    doi = "10.1038/nnano.2007.225",
    volume = "2",
    number = "8",
    pages = "490-494"
}


@article{https://authors.library.caltech.edu/records/p98fy-fvv11,
    authors = "Dirks, Robert M. and Bois, Justin S. and Schaeffer, Joseph M. and Winfree, Erik and Pierce, Niles A.",
    title = "Thermodynamic Analysis of Interacting Nucleic Acid Strands",
    journal = "SIAM Review",
    publisher = "Society for Industrial and Applied Mathematics",
    year = "2007",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:DIRsiamrev07",
    id = "https://authors.library.caltech.edu/records/p98fy-fvv11",
    issn = "0036-1445",
    doi = "10.1137/060651100",
    volume = "49",
    number = "1",
    pages = "65-88"
}


@article{https://authors.library.caltech.edu/records/ja7b6-0ym34,
    authors = "Bois, Justin S. and Venkataraman, Suvir and Choi, Harry M. T. and Spakowitz, Andrew J. and Wang, Zhen-Gang and Pierce, Niles A.",
    title = "Topological constraints in nucleic acid hybridization kinetics",
    journal = "Nucleic Acids Research",
    publisher = "Oxford University Press",
    year = "2005",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:BOInar05",
    id = "https://authors.library.caltech.edu/records/ja7b6-0ym34",
    issn = "0305-1048",
    doi = "10.1093/nar/gki721",
    volume = "33",
    number = "13",
    pmcid = "PMC1180668",
    pages = "4090-4095"
}


@article{https://authors.library.caltech.edu/records/gym79-1kc91,
    authors = "Dirks, Robert M. and Pierce, Niles A.",
    title = "Triggered amplification by hybridization chain reaction",
    journal = "Proceedings of the National Academy of Sciences of the United States of America",
    publisher = "National Academy of Sciences",
    year = "2004",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:DIRpnas04",
    id = "https://authors.library.caltech.edu/records/gym79-1kc91",
    issn = "0027-8424",
    doi = "10.1073/pnas.0407024101",
    volume = "101",
    number = "43",
    pmcid = "PMC524468",
    pages = "15275-15278"
}


@article{https://authors.library.caltech.edu/records/a678a-0mz05,
    authors = "Shin, Jong-Shik and Pierce, Niles A.",
    title = "A Synthetic DNA Walker for Molecular Transport",
    journal = "Journal of the American Chemical Society",
    publisher = "American Chemical Society",
    year = "2004",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20170224-152823096",
    id = "https://authors.library.caltech.edu/records/a678a-0mz05",
    issn = "0002-7863",
    doi = "10.1021/ja047543j",
    volume = "126",
    number = "35",
    pages = "10834-10835"
}


@article{https://authors.library.caltech.edu/records/0vm52-w2f65,
    authors = "Dirks, Robert M. and Pierce, Niles A.",
    title = "An algorithm for computing nucleic acid base‐pairing probabilities including pseudoknots",
    journal = "Journal of Computational Chemistry",
    publisher = "Wliey",
    year = "2004",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20190503-151608000",
    id = "https://authors.library.caltech.edu/records/0vm52-w2f65",
    issn = "0192-8651",
    doi = "10.1002/jcc.20057",
    volume = "25",
    number = "10",
    pages = "1295-1304"
}


@article{https://authors.library.caltech.edu/records/gq30a-73z11,
    authors = "Shin, Jong-Shik and Pierce, Niles A.",
    title = "Rewritable Memory by Controllable Nanopatterning of DNA",
    journal = "Nano Letters",
    publisher = "American Chemical Society",
    year = "2004",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20170802-102130134",
    id = "https://authors.library.caltech.edu/records/gq30a-73z11",
    issn = "1530-6984",
    doi = "10.1021/nl049658r",
    volume = "4",
    number = "5",
    pages = "905-909"
}


@article{https://authors.library.caltech.edu/records/h9ar8-8js27,
    authors = "Giles, Michael B. and Pierce, Niles and Süli, Endre",
    title = "Progress in adjoint error correction for integral functionals",
    journal = "Computing and Visualization in Science",
    publisher = "Springer",
    year = "2004",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20200221-132333124",
    id = "https://authors.library.caltech.edu/records/h9ar8-8js27",
    issn = "1432-9360",
    doi = "10.1007/s00791-003-0115-y",
    volume = "6",
    number = "2-3",
    pages = "113-121"
}


@article{https://authors.library.caltech.edu/records/r694w-8cp52,
    authors = "Dirks, Robert M. and Lin, Milo and Winfree, Erik and Pierce, Niles A.",
    title = "Paradigms for computational nucleic acid design",
    journal = "Nucleic Acids Research",
    publisher = "Oxford University Press",
    year = "2004",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20110309-104203820",
    id = "https://authors.library.caltech.edu/records/r694w-8cp52",
    issn = "0305-1048",
    doi = "10.1093/nar/gkh291",
    volume = "32",
    number = "4",
    pmcid = "PMC390280",
    pages = "1392-1403"
}


@article{https://authors.library.caltech.edu/records/rdrp1-29n94,
    authors = "Dirks, Robert M. and Pierce, Niles A.",
    title = "A Partition Function Algorithm for Nucleic Acid Secondary Structure Including Pseudoknots",
    journal = "Journal of Computational Chemistry",
    publisher = "Wliey",
    year = "2003",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20170227-084204047",
    id = "https://authors.library.caltech.edu/records/rdrp1-29n94",
    issn = "0192-8651",
    doi = "10.1002/jcc.10296",
    volume = "24",
    number = "13",
    pages = "1664-1677"
}


@article{https://authors.library.caltech.edu/records/b7b45-yvv65,
    authors = "Gordon, D. Benjamin and Hom, Geoffrey K. and Mayo, Stephen L. and Pierce, Niles A.",
    title = "Exact rotamer optimization for protein design",
    journal = "Journal of Computational Chemistry",
    publisher = "Wliey",
    year = "2003",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20110913-173425474",
    id = "https://authors.library.caltech.edu/records/b7b45-yvv65",
    issn = "0192-8651",
    doi = "10.1002/jcc.10121",
    volume = "24",
    number = "2",
    pages = "232-243"
}


@article{https://authors.library.caltech.edu/records/1hjmr-84k83,
    authors = "Pierce, Niles A. and Winfree, Erik",
    title = "Protein Design is NP-hard",
    journal = "Protein Engineering",
    publisher = "Oxford University Press",
    year = "2002",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:PIEpeds02.939",
    id = "https://authors.library.caltech.edu/records/1hjmr-84k83",
    issn = "0269-2139",
    doi = "10.1093/protein/15.10.779",
    volume = "15",
    number = "10",
    pages = "779-782"
}


@article{https://authors.library.caltech.edu/records/p4y1e-z6x26,
    authors = "Giles, Michael B. and Pierce, Niles A.",
    title = "Analytic adjoint solutions for the quasi-one-dimensional Euler equations",
    journal = "Journal of Fluid Mechanics",
    publisher = "Cambridge University Press",
    year = "2001",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:GILjfm01",
    id = "https://authors.library.caltech.edu/records/p4y1e-z6x26",
    issn = "0022-1120",
    doi = "10.1017/S0022112000002366",
    volume = "426",
    pages = "327-345"
}


@article{https://authors.library.caltech.edu/records/mn5zg-k3887,
    authors = "Pierce, Niles A. and Spriet, Jan A. and Desmet, Johan and Mayo, Stephen L.",
    title = "Conformational splitting: a more powerful criterion for dead-end elimination",
    journal = "Journal of Computational Chemistry",
    publisher = "Wliey",
    year = "2000",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:20110620-160432187",
    id = "https://authors.library.caltech.edu/records/mn5zg-k3887",
    issn = "0192-8651",
    doi = "10.1002/1096-987X(200008)21:11<999::AID-JCC9>3.0.CO;2-A",
    volume = "21",
    number = "11",
    pages = "999-1009"
}


@article{https://authors.library.caltech.edu/records/s0cdr-tnr25,
    authors = "Pierce, Niles A. and Giles, Michael B.",
    title = "Adjoint recovery of superconvergent functionals from PDE approximations",
    journal = "SIAM Review",
    publisher = "Society for Industrial and Applied Mathematics",
    year = "2000",
    url = "https://resolver.caltech.edu/CaltechAUTHORS:PIEsiamrev00",
    id = "https://authors.library.caltech.edu/records/s0cdr-tnr25",
    issn = "0036-1445",
    doi = "10.1137/S0036144598349423",
    volume = "42",
    number = "2",
    pages = "247-264"
}