Fei Chen
Fei received his BS in Electrical Engineering from Caltech, and completed a PhD in the Biological Engineering Department at MIT working in the Boyden lab. He worked on developing expansion microscopy, a powerful new way of mapping molecules and anatomy with precision and at scale. He is interested in the convergence of electrical engineering and bioengineering. He also loves to build things, whether it's electronics or biological molecules. After graduating, he went on to a Broad Fellowship at the Broad Institute in Cambridge, MA.
Publications
Barcoded oligonucleotides ligated on RNA amplified for multiplexed and parallel in situ analyses
Nucleic Acids Research | 2021Liu S, Punthambaker S, Iyer EPR, Ferrante T, Goodwin D, Fürth D, Pawlowski AC, Jindal K, Tam JM, Mifflin L, Alon S, Sinha A, Wassie AT, Chen F, Cheng A, Willocq V, Meyer K, Ling KH, Camplisson CK, Kohman RE, Aach J, Lee JH, Yankner BA, Boyden ES, Church GM (2021) Barcoded oligonucleotides ligated on RNA amplified for multiplexed and parallel in situ analyses, Nucleic Acids Research 49(10):e58.
Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems
Science | 2021Alon 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)
Expansion microscopy of C. elegans
eLife | 2020Yu CJ, Barry NC, Wassie AT, Sinha A, Bhattacharya A, Asano S, Zhang C, Chen F, Hobert O, Goodman MB, Haspel G, Boyden ES (2020) Expansion microscopy of C. elegans, eLife 9:e46249.
Multidimensional screening yields channelrhodopsin variants having improved photocurrent and order-of-magnitude reductions in calcium and proton currents
Journal of Biological Chemistry | 2019Cho YK, Park D*, Yang A*, Chen F, Chuong AS, Klapoetke NC, Boyden ES (2019) Multidimensional screening yields channelrhodopsin variants having improved photocurrent and order-of-magnitude reductions in calcium and proton currents, Journal of Biological Chemistry 294(11):3806-3821. (*, equal contribution)
3D nanofabrication by volumetric deposition and controlled shrinkage of patterned scaffolds
Science | 2018D. 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)
Expansion Microscopy: Protocols for Imaging Proteins and RNA in Cells and Tissues
Current Protocols in Cell Biology | 2018Asano SM*, Gao R*, Wassie AT*, Tillberg PW, Chen F, Boyden ES (2018) Expansion Microscopy: Protocols for Imaging Proteins and RNA in Cells and Tissues, Current Protocols in Cell Biology 80(1):e56. (*, co-first authors)
Nanoscale imaging of clinical specimens using pathology-optimized expansion microscopy
Nature Biotechnology | 2017Zhao Y*, Bucur O*, Irshad H, Chen F, Weins A, Stancu AL, Oh EY, DiStasio M, Torous V, Glass B, Stillman IE, Schnitt SJ, Beck AH**, Boyden ES** (2017) Nanoscale imaging of clinical specimens using pathology-optimized expansion microscopy, Nature Biotechnology 35(8):757-764. (*, co-first authors; **, co-corresponding authors)
Iterative expansion microscopy
Nature Methods | 2017Chang, J.-B., Chen, F., Yoon, Y.-G., Jung, E. E., Babcock H., Kang J.-S., Asano S., Suk H.-J., Pak N., Tillberg P.W., Wassie A., Cai D., Boyden E.S. (2017) Iterative expansion microscopy, Nature Methods 14:593-599.
Nanoscale imaging of RNA with expansion microscopy
Nature Methods | 2016Chen, 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)
Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies
Nature Biotechnology | 2016Tillberg, P.W.*, Chen, F.*, Piatkevich, K.D., Zhao, Y., Yu, C.-C., English, B.P., Gao, L., Martorell, A., Suk, H.-J., Yoshida, F., DeGennaro, E.M., Roossien, D.H., Gong, G., Seneviratne, U., Tannenbaum, S.R., Desimone, R., Cai, D., Boyden, E.S. (2016) Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies, Nature Biotechnology 34:987-992. (*, co-first authors)
Automated scalable segmentation of neurons from multispectral images
Advances in Neural Information Processing Systems | 2016Uygar Sümbül, Douglas Roossien, Dawen Cai, Fei Chen, Nicholas Barry, John P. Cunningham, Edward Boyden, Liam Paninski (2016) Automated scalable segmentation of neurons from multispectral images, Advances in Neural Information Processing Systems 29 (NIPS 2016).
Hybrid Microscopy: Enabling Inexpensive High-Performance Imaging through Combined Physical and Optical Magnifications
Scientific Reports | 2016Zhang YS*, Chang JB*, Alvarez MM, Trujillo-de Santiago G, Aleman J, Batzaya B, Krishnadoss V, Ramanujam AA, Kazemzadeh-Narbat M, Chen F, Tillberg PW, Dokmeci MR, Boyden ES**, Khademhosseini A.** (2016) Hybrid Microscopy: Enabling Inexpensive High-Performance Imaging through Combined Physical and Optical Magnifications, Scientific Reports 6:22691. (* co-first authors, ** co-corresponding authors)
Expansion Microscopy
Science | 2015Chen, F.*, Tillberg, P.W.*, Boyden, E.S. (2015) Expansion Microscopy, Science 347(6221):543-548. (*, equal contribution)
A fully genetically-encoded protein architecture for optical control of peptide ligand concentration
Nature Communications | 2014Schmidt, D., Tillberg, P. W.*, Chen, F.*, Boyden, E. S. (2014) A fully genetically-encoded protein architecture for optical control of peptide ligand concentration, Nature Communications, 5:3019. (* equal contribution)