Selected Publications

*denotes equal contribution, underline denotes corresponding authorship, boldface denotes a Myhrvold lab member

Recent Publications

2024

  1. Mantena S, Pillai PP, Petros BA, Welch NL, Myhrvold C, Sabeti PC*, and Metsky HC*. Model-directed generation of artificial CRISPR–Cas13a guide RNA sequences improves nucleic acid detection. 2024. Nature Biotechnology.

  2. Marogi J, Murphy CT, Myhrvold C, and Gitai Z. Pseudomonas aeruginosa modulates both Caenorhabditis elegans attraction and pathogenesis by regulating nitrogen assimilation. 2024. Nature Communications 15: 7927.

  3. Gauhar ZA, Myhrvold C, and Gavis ER. Leveraging CRISPR-Cas13d in an inducible knockdown system to interrogate Drosophila germ granule mRNAs. 2024. bioRxiv. Submitted.

  4. Davis D, Lamb CH, Myhrvold CA, Ullah H. Rapid detection of active coronavirus infection by lateral flow test strips: a new approach to distinguish replicating viruses from non-replicating viruses. 2024. bioRxiv.

  5. Grimm MS and Myhrvold C. Using CRISPR for viral nucleic acid detection. 2024. Submitted to Methods in Enzymology. (invited book chapter)

  6. Nguyen LT*, Rakestraw NR*, Pizzano BLM, Young CB, Huang Y, Beerensson KT, Fang A, Antal SG, Anamisis KV, Peggs CMD, Yan J, Jing Y, Burdine RD, Adamson B, Toettcher JE, Myhrvold C*, Jain PK*. Efficient genome editing with chimeric oligonucleotide-directed editing. 2024. bioRxiv. Submitted.

  7. Zhang YB*, Arizti-Sanz J*, Bradley A, Huang Y, Kosko-Thoroddsen TK, Sabeti PC*, and Myhrvold C*. CRISPR-based assays for point of need detection and subtyping of influenza. 2024. The Journal of Molecular Diagnostics 26:7 599-612.

  8. Lamb CH, Pitre EM, Elshina E, Rigby CV, Bisht K, Oade MS, Jalal H, Myhrvold C, and Te Velthuis AJW. Quantification of influenza virus mini viral RNA dynamics using Cas13. 2024. bioRxiv. In press at RNA.

  9. Sengupta T, St. Ange J, Kaletsky R, Moore RS, Seto RJ, Marogi J, Myhrvold C, Gitai Z, and Murphy CT. A natural bacterial pathogen of C. elegans uses a small RNA to induce transgenerational inheritance of learned avoidance. 2024. PLOS Genetics 20(3): e1011178.

2023

  1. Kimchi O*, Larsen BB*, Dunkley ORS, Te Velthuis AJW, and Myhrvold C. RNA structure modulates Cas13 activity and enables mismatch detection. 2023. bioRxiv. In revision.

  2. Siddiqui SM*, Welch NL*, Nguyen TG*, Razmi A, Chang T, Senft R, Arizti-Sanz J, Mirhashemi ME, Stirling DR, Ackerman CM, Cimini BA, Blainey PC, Sabeti PC*, and Myhrvold C*. Bead-based approaches to CRISPR diagnostics. 2023. medRxiv. In revision.

  3. Kang B, Zhang J, Schwoerer MP, Nelson AN, Shoeman E, Guo A, Ploss A, and Myhrvold C. Highly multiplexed mRNA quantitation with CRISPR-Cas13. 2023. bioRxiv. In revision.

  4. Lamb CH, Kang B, and Myhrvold C. Multiplexed CRISPR-based Methods for Pathogen Nucleic Acid Detection. 2023. Current Opinion in Biomedical Engineering 27: 100471. (review)

  5. Sharma S and Myhrvold C. Optimizing the Cas13 Antiviral Train: Cargo and Delivery. 2023. EMBO Molecular Medicine e17146. (commentary)

2022

  1. Kellog EH, Gootenberg J, Abudayyeh O, Wong ASL, Dahlman JE, Lapinaite A, Myhrvold C, Liu CC, Hsu PD, Mali P, and Qi LS. What are the current bottlenecks in developing and applying CRISPR technologies? 2022. Cell Systems 13(8):589-593.

  2. Arizti-Sanz J, Bradley A, Zhang YB, Boehm CK, Freije CA, Grunberg ME, Kosoko-Thoroddsen TF, Welch NL, Pillai PP, Mantena S, Kim G, Uwanibe JN, John OG, Eromon PE, Kocher G, Gross R, Lee JS, Hensley LE, Johnson J, Springer M, Happi CT, Sabeti PC*, and Myhrvold C*. Simplified Cas13-based assays for the fast identification of SARS-CoV-2 and its variants. 2022. Nature Biomedical Engineering 6: 932-943.

  3. Thakku SG, Ackerman CA, Myhrvold C, Bhattacharyya RP, Livny J, Ma P, Isabella G, Sabeti PC, Blainey PC, and Hung DT. Multiplexed detection of bacterial nucleic acids using Cas13 in droplet microarrays. PNAS Nexus 1(1). 2022.

  4. Metsky HC, Welch NL, Pillai PP, Haradhvala NJ, Rumker L, Mantena S, Zhang YB, Yang DK, Ackerman CM, Weller J, Blainey PC, Myhrvold C*, Mitzenmacher M*, and Sabeti PC*. Designing sensitive viral diagnostics with machine learning. 2022. Nature Biotechnology 40: 1123-1131.

  5. Welch NL, Zhu M, Hua C, Weller J, Ezzaty Mirhashemi M, Nguyen TG, Mantena S, Bauer MR, Shaw BM, Ackerman CA, Thakku SG, Tse MW, Kehe J, Uwera M-M, Eversley JS, Bielwaski DA, McGrath G, Braidt J, Johnson J, Cerrato F, Moreno GK, Krasilnikova LA, Petros BA, Gionet GL, King E, Huard RC, Jalbert SK, Cleary ML, Fitzgerald NA, Gabriel SB, Gallagher GR, Smole  SC, Madoff LC, Brown CM, Keller MW, Wilson MM, Kirby MK, Barnes JR, Park, JK, Siddle KJ, Happi CT, Hung DT, MacInnis BL, Lemieux JE, Rosenberg E, Branda JA*, Blainey PC*, Sabeti PC* and Myhrvold, C*. Multiplexed CRISPR-based microfluidic platform for clinical testing of respiratory viruses and identification of SARS-CoV-2 variants. 2022. Nature Medicine 28: 1083-1094.

2021

  1. Botti-Lodovico Y*, Nair P*, Nosamiefan D*, Stremlau M*, Schaffner S*, Agignoae SV, Aiyepada JO, Ajobasile FV, Akpede GO, Alhasan F, Andersen KG, Asogun AD, Ayodeji OO, Badiane AS, Barnes K, Bauer MR, Bell-Kareem A, Benard ME, Benevolence EO, Blessing O, Boehm CK, Boiesen ML, Bond NG, Branco LM, Butts MJ, Carter A, Colubri A, Deme AB, Deruff KC, Diédhiou Y, Edamhande AP, Elhamoumi S, Engel EJ, Eromon P, Fallah M, Folarin OA, Fry B, Garry R, Gaye A, Gbakie M, Gevao SM, Gionet G, Gladden-Young A, Goba A, Gomis JF, Happi AN, Houghton M, Ihekwuazu C, Iruolagbe CO, Jackson J, Jalloh S, Johnson J, Kanneh L, Kayode A, Kemball M, Kingsley OC, Koroma V, Kotliar D, Mehta S, Metsky HC, Michael A, Mirhashemi ME, Modjarrad K, Momoh M, Myhrvold CA, Naregose OG, Ndiaye T, Ndiaye M, Ndiaye A, Normandin E, Odia I, Oguzie JU, Okogbenin SA, Okokhere PO, Okolie J, Olawoye IB, Olumade TJ, Oluniyi PE, Omoregi O, Park DJ, Paye MF, Petros B, Philippakis AA, Priscilla A, Ricks A, Rimoin A, Sandi JD, Schieffelin JS, Schreiber M, Seck MC, Siddiqui S, Siddle K, Smither AR, Sy M, Sy N, Tomkins-Tinch CH, Tomori O, Victoria DI, Vinze A, Vodzak ME, Welch N, Wurie HI, Zoumarou D, Grant DS*, Ndiaye D*, MacInnis B*, Sabeti PC*, and Happi C*. The Origins and Future of Sentinel: An Early-Warning System for Pandemic Preemption and Response. 2021. Viruses 13(8): 1605.

  2. Lemieux JE, Siddle KJ, Shaw BM, Loreth C, Schaffner SF, Gladden-Young A, Adams G, Fink T, Tomkins-Tinch CH, Krasilnikova LA, DeRuff KC, Rudy M, Bauer MR, Lagerborg KA, Normandin E, Chapman SB, Reilly SK, Anahtar MN, Lin AE, Carter A, Myhrvold C, Kemball ME, Chaluvadi S, Cusick C, Flowers K, Neumann A, Cerrato F, Farhat M, Slater D, Harris JB, Branda JA, Hopper D, Gaeta JM, Baggett TP, O’Connell JO, Gnirke A, Lieberman TD, Philippakis A, Burns M, Brown CM, Luban J, Ryan ET, Turbett SE, LaRocque RC, Hanage WP, Gallagher GR*, Madoff LC*, Smole S*, Pierce VM*, Rosenberg E*, Sabeti PC*, Park DJ*, and MacInnis BL*. Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events. 2021. Science 371(6529) eabe3261.

Postdoc Publications

  1. Arizti-Sanz J*, Freije CA*, Stanton AC, Boehm CK, Petros BA, Siddiqui S, Shaw BM, Adams G, Kosoko-Thoroddsen TF, Kemball ME, Uwanibe JN, Ajogbasile FV, Eromon PE, Gross R, Wronka L, Caviness K, Hensley LE, Bergman NH, MacInnis BL, Happi CT, Lemieux JE, Sabeti PC*, and Myhrvold C*. Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2. 2020. Nature Communications 11: 5921.

  2. Barnes KG*, Lachenauer AE*, Nitido A, Siddiqui S, Gross R, Beitzel B, Siddle KJ, Freije CA, Dighero-Kemp B, Mehta S, Carter A, Uwanibe J, Ajogbasile F, Olumade T, Odia I, Sandi JD, Momo M, Metsky HC, Boehm CK, Lin AE, Kemball M, Park DJ, Grant DS, Happi CT, Branco L, Boisen M, Sullivan BM, Amara M, Tiamiyu A, Parker Z, Iroezindo M, Modjarrad K, Myhrvold C, Garry RF, Palacios G, Hensley LE, Schaffner SF, Colubri A, and Sabeti PC. Deployable CRISPR-Cas13a diagnostic tools to detect and report Ebola and Lassa virus cases in real-time. 2020. Nature Communications 11: 4131.

  3. Ackerman CM*, Myhrvold C*, Thakku SG, Freije CA, Metsky HC, Yang DK, Ye SH, Boehm CK, Kosoko-Thoroddsen TF, Kehe J, Nguyen TG, Carter A, Kulesa A, Barnes JR, Dugan VG, Hung DT, Blainey PC*, and Sabeti PC*. Massively multiplexed nucleic acid detection with Cas13. 2020. Nature 582: 277-282.

  4. Metsky H, Freije CA, Kosoko-Thoroddsen TF, Sabeti PC, and Myhrvold C. CRISPR-based surveillance for COVID-19 using genomically-comprehensive machine learning design. 2020. bioRxiv.

  5. Freije CA*, Myhrvold C*, Boehm CK, Welch NL, Lin AE, Carter A, Metsky HC, Luo CY, Abudayyeh OO, Gootenberg JS, Yozwiak NL, Zhang F, and Sabeti PC. Programmable inhibition and detection of RNA viruses using Cas13. 2019. Molecular Cell 76: 1-12.

  6. Myhrvold C*, Freije CA*, Gootenberg JS, Abudayyeh OO, Metsky HC, Durbin AF, Kellner MJ, Tan AL, Paul LM, Parham LA, Garcia KF, Barnes KG, Chak B, Mondini A, Nogueira ML, Isern S, Michal SF, Lorenzana I, Yozwiak NL, MacInnis BL, Bosch I, Gehrke L, Zhang F, and Sabeti PC. Field-deployable viral diagnostics using CRISPR-Cas13. 2018. Science 360(6387): 444-448.

  7. Gootenberg JS*, Abudayyeh OO*, Lee JW, Essletzbichler P, Dy AJ, Joung J, Verdine V, Donghia N, Daringer NM, Freije CA, Myhrvold C, Bhattacharyya RP, Livny J, Regev A, Koonin EV, Hung DT, Sabeti PC, Collins JJ*, and Zhang F*. Nucleic acid detection with CRISPR-Cas13a/C2c2. 2017. Science 356(6336): 438-442.

PhD Publications

  1. Woods D*, Doty D*, Myhrvold C, Hui J, Zhou F, Yin P, and Winfree E. Diverse and robust molecular algorithms using reprogrammable DNA self-assembly. 2019. Nature 567: 366-372.

  2. Sachdeva G*, Myhrvold C*, Yin P, and Silver PA. Synthetic RNA Scaffolds for Spatial Engineering in Cells. 2018. Synthetic Biology: Parts, Devices and Applications (book chapter)

  3. Han D*, Qi X*, Myhrvold C, Wang B, Dai M, Jiang S, Bates M, Liu Y, An B*, Zhang F*, Yan H* and Yin P*. Single-stranded DNA and RNA Origami. 2017. Science 358(6369): eaao2648.

  4. Ong LL, Hanikel N, Yaghi OK, Grun C, Strauss MT, Bron P, JLai-Kee-Him J, Schueder F, Wang B, Wang P, Kishi JY, Myhrvold C, Zhu A, Jungmann R, Bellot G, Ke Y, and Yin P. Programmable self-assembly of three-dimensional nanostructures from 104 unique components. 2017. Nature 552: 72-77.

  5. Myhrvold C, Baym M, Hanikel N, Ong LL, Gootenberg JS, and Yin P. Barcode Extension for Analysis and Reconstruction of Structures. 2017. Nature Communications 8: 14698.

  6. Myhrvold C*, Polka J*, and Silver PA. Synthetic Lipid-Containing Scaffolds Enhance Indigo Production by Colocalizing Enzymes. 2016. ACS Synthetic Biology 5(12): 1396-1403.

  7. Myhrvold C, Kotula JW, Hicks WM, Conway NJ, and Silver PA. A Distributed Cell Division Counter Reveals Growth Dynamics in the Mammalian Gut. 2015. Nature Communications 6: 10039.

  8. Myhrvold C and Silver PA. Using synthetic RNAs as scaffolds and regulators. 2015. Nature Structural and Molecular Biology 22(1): 8-10. (review)

  9. Myhrvold C, Dai M, Silver PA, and Yin P. Isothermal self-assembly of complex DNA structures under diverse and biocompatible conditions. 2013. Nano Letters 13(9): 4242-4248.

  10. Wei B, Dai M, Myhrvold C, Ke Y, Jungmann R, and Yin P. Design space for complex DNA structures. 2013. Journal of the American Chemical Society 135(48):18080-8.

For a complete publication list, see Google Scholar