bioRxiv |
2024
Tay Won Shin, Hao Wang*, Chi Zhang*, Bobae An, Yangning Lu, Elizabeth Zhang, Xiaotang Lu, Emmanouil D Karagiannis, Jeong Seuk Kang, Amauche Emenari, Panagiotis Symvoulidis, Shoh Asano, Leanne Lin, Emma K Costa; IMAXT Grand Challenge Consortium; Adam H Marblestone, Narayanan Kasthuri, Li-Huei Tsai, Edward S Boyden (2024) Dense, Continuous Membrane Labeling and Expansion Microscopy Visualization of Ultrastructure in Tissues, bioRxiv 2024.03.07.583776; doi: https://doi.org/10.1101/2024.03.07.583776 (*, equal contribution)
Science |
2021
Alon S*, Goodwin DR*, Sinha A*, Wassie AT*, Chen F*, Daugharthy ER**, Bando Y, Kajita A, Xue AG, Marrett K, Prior R, Cui Y, Payne AC, Yao CC, Suk HJ, Wang R, Yu CJ, Tillberg P, Reginato P, Pak N, Liu S, Punthambaker S, Iyer EPR, Kohman RE, Miller JA, Lein ES, Lako A, Cullen N, Rodig S, Helvie K, Abravanel DL, Wagle N, Johnson BE, Klughammer J, Slyper M, Waldman J, Jané-Valbuena J, Rozenblatt-Rosen O, Regev A; IMAXT Consortium, Church GM***+, Marblestone AH***, Boyden ES***+ (2021) Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems, Science 371(6528):eaax2656. (* equal contribution, ** key contributions to early stages of project, *** equal contribution, +co-corresponding authors)
bioRxiv |
2019
Emmanouil D. Karagiannis*, Jeong Seuk Kang*, Tay Won Shin, Amauche Emenari, Shoh Asano, Leanne Lin, Emma K. Costa, IMAXT Grand Challenge Consortium, Adam H. Marblestone, Narayanan Kasthuri, Edward S. Boyden (2019) Expansion Microscopy of Lipid Membranes, bioRxiv 829903. (*, equal contribution)
Neuron |
2019
Boyden ES, Marblestone AH (2019) Architecting Discovery: A Model for How Engineers Can Help Invent Tools for Neuroscience, Neuron 102(3):523-525.
PLoS One |
2019
Rodriques SG, Marblestone AH, Boyden ES (2019) A theoretical analysis of single molecule protein sequencing via weak binding spectra, PLoS One 14(3):e0212868.
Science |
2018
D. Oran*, S. G. Rodriques*, R. Gao, S. Asano, M. A. Skylar-Scott, F. Chen, P. W. Tillberg, A. H. Marblestone**, E. S. Boyden** (2018) 3D nanofabrication by volumetric deposition and controlled shrinkage of patterned scaffolds, Science 362(6420):1281-1285. (*, equal contributors; **, equal contributors)
Nucleic Acids Research |
2018
de Paz AM, Cybulski TR, Marblestone AH, Zamft BM, Church GM, Boyden ES, Kording KP, Tyo KEJ (2018) High-resolution mapping of DNA polymerase fidelity using nucleotide imbalances and next-generation sequencing, Nucleic Acids Research 46(13):e78.
Frontiers in Computational Neuroscience |
2017
Yoon YG, Dai P, Wohlwend J, Chang JB, Marblestone AH, Boyden ES (2017) Feasibility of 3D Reconstruction of Neural Morphology Using Expansion Microscopy and Barcode-Guided Agglomeration, Frontiers in Computational Neuroscience 11:97.
Scientific Reports |
2017
Wu J, de Paz A, Zamft BM, Marblestone AH, Boyden ES, Kording KP, Tyo KEJ (2017) DNA binding strength increases the processivity and activity of a Y-Family DNA polymerase, Scientific Reports 7(1):4756.
Nature Methods |
2016
Chen, F.*, Wassie, A.T.*, Cote, A.J., Sinha, A., Alon, S., Asano, S., Daugharthy, E.R., Chang, J.-B., Marblestone, A., Church, G.M., Raj, A., Boyden, E.S. (2016) Nanoscale Imaging of RNA with Expansion Microscopy, Nature Methods 13(8):679-84. (*, co-first authors)
Journal of Biomedical Optics |
2016
Rodriques, S.G.*, Marblestone, A.H*, Scholvin, J., Dapello, J., Sarkar, D., Mankin, M., Gao, R., Wood, L., and Boyden, E.S. (2016) Multiplexed neural recording along a single optical fiber via optical reflectometry, Journal of Biomedical Optics 21(5):057003. (*, co-first authors)
Frontiers in Computational Neuroscience |
2015
Cybulski TR, Glaser JI, Marblestone AH, Zamft BM, Boyden ES, Church GM, Kording KP (2015)
Spatial information in large-scale neural recordings, Frontiers in Computational
Neuroscience 8:172.
Neuron |
2014
Marblestone, A.H., Boyden, E.S. (2014) Designing Tools for Assumption-Proof Brain Mapping,
Neuron 83(6):1239-1241.
Frontiers in Computational Neuroscience |
2013
Marblestone, A. H.**+, Zamft, B. M.+, Maguire, Y. G., Shapiro, M. G., Cybulski, T. R., Glaser, J. I., Amodei, D., Stranges, P. B., Kalhor, R., Dalrymple, D. A., Seo, D., Alon, E., Maharbiz, M. M., Carmena, J. M., Rabaey, J. M., Boyden, E. S.*, Church, G. M. *, Kording, K. P. * (2013) Physical Principles for Scalable Neural Recording, Frontiers in Computational Neuroscience, 7:137. (** corresponding author, + equal contribution, * equal contribution)
PLoS Computational Biology |
2013
Glaser J.I.**, Zamft B.M.*, Marblestone A.H.*, Moffitt J.R., Tyo K., Boyden E.S., Church G., Kording K.P. (2013) Statistical analysis of molecular signal recording, PLoS Computational Biology 9(7):e1003145. (** corresponding author, * equal contribution)
PLoS ONE |
2012
Zamft, B. M.*, Marblestone, A. H.*, Kording, K., Schmidt, D., Martin-Alarcon, D., Tyo, K., Boyden, E. S., Church, G. (2012) Measuring Cation Dependent DNA Polymerase Fidelity Landscapes by Deep Sequencing, PLoS ONE 7(8): e43876. (* co-first authors)