Yi Cui

Email: yicui, followed by @mit.edu

Yi received his medical degree at Central South University XiangYa School of Medicine, China and his Ph.D. in Biological Engineering at Purdue University. He completed his postdoc training in single-cell systems biology at Pacific Northwest National Laboratory. During his Ph.D. and postdoc research, he developed advanced nanotechnology and imaging tools to address challenging biomedical questions at the single-molecule level. In the Synthetic Neurobiology group, Yi optimized the chemistry underlying expansion microscopy, and applied it to diverse contexts in biology and medicine.

Publications

A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features

Nature Medicine | 2024

Klughammer J, Abravanel DL, Segerstolpe Å, Blosser TR, Goltsev Y, Cui Y, Goodwin DR, Sinha A, Ashenberg O, Slyper M, Vigneau S, Jané-Valbuena J, Alon S, Caraccio C, Chen J, Cohen O, Cullen N, DelloStritto LK, Dionne D, Files J, Frangieh A, Helvie K, Hughes ME, Inga S, Kanodia A, Lako A, MacKichan C, Mages S, Moriel N, Murray E, Napolitano S, Nguyen K, Nitzan M, Ortiz R, Patel M, Pfaff KL, Porter CBM, Rotem A, Strauss S, Strasser R, Thorner AR, Turner M, Wakiro I, Waldman J, Wu J, Gómez Tejeda Zañudo J, Zhang D, Lin NU, Tolaney SM, Winer EP, Boyden ES, Chen F, Nolan GP, Rodig SJ, Zhuang X, Rozenblatt-Rosen O, Johnson BE, Regev A, Wagle N (2024) A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features, Nature Medicine 30(11):3236-3249.

Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems

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)