Publications
Chenglong Xia, Jean Fan, George Emanuel, Junjie Hao, and Xiaowei Zhuang
PNAS 116, 19490-19499 (2019)
The expression profiles and spatial distributions of RNAs regulate many cellular functions. Image-based transcriptomic approaches provide powerful means to measure both expression and spatial information of RNAs in individual cells within their native environment. Among…
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Publications
Chenglong Xia, Hazen P. Babcock, Jeffrey R. Moffitt & Xiaowei Zhuang
Scientific Reports 9, 7721 (2019)
Multiplexed error-robust fluorescence in situ hybridization (MERFISH) allows simultaneous imaging of numerous RNA species in their native cellular environment and hence spatially resolved single-cell transcriptomic measurements. However, the relatively modest brightness of signals from single RNA molecules…
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Publications
Jeffrey R. Moffitt, Dhananjay Bambah-Mukku, Stephen W. Eichhorn, Eric Vaughn, Karthik Shekhar, Julio D. Perez, Nimrod D. Rubinstein, Junjie Hao, Aviv Regev, Catherine Dulac, Xiaowei Zhuang
Science 362, 6416-eaau5324 (2018)
The hypothalamus controls essential social behaviors and homeostatic functions. However, the cellular architecture of hypothalamic nuclei—including the molecular identity, spatial organization, and function of distinct cell types—is poorly understood. Here, we developed an imaging-based in…
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Publications
Guiping Wang, Jeffrey R. Moffitt & Xiaowei Zhuang
Scientific Reports 8, 4847 (2018)
As an image-based single-cell transcriptomics approach, multiplexed error-robust fluorescence in situ hybridization (MERFISH) allows hundreds to thousands of RNA species to be identified, counted and localized in individual cells while preserving the native spatial context of RNAs….
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Publications
George Emanuel, Jeffrey R. Moffitt & Xiaowei Zhuang
Nature Methods 14, 1159-1162 (2017)
We report a high-throughput screening method that allows diverse genotypes and corresponding phenotypes to be imaged in individual cells. We achieve genotyping by introducing barcoded genetic variants into cells as pooled libraries and reading the…
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Publications
Jeffrey R. Moffitt, Junjie Hao, Dhananjay Bambah-Mukku, Tian Lu, Catherine Dulac, and Xiaowei Zhuang
PNAS 113, 14456-14461 (2016)
Highly multiplexed single-molecule FISH has emerged as a promising approach to spatially resolved single-cell transcriptomics because of its ability to directly image and profile numerous RNA species in their native cellular context. However, background—from off-target…
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Publications
Jeffrey R. Moffitt, Junjie Hao, Guiping Wang, Kok Hao Chen, Hazen P. Babcock, and Xiaowei Zhuang
PNAS 113, 11046-11051 (2016)
Image-based approaches to single-cell transcriptomics, in which RNA species are identified and counted in situ via imaging, have emerged as a powerful complement to single-cell methods based on RNA sequencing of dissociated cells. These image-based…
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Publications
J.R.Moffitt, X.Zhuang
Methods in Enzymology 572, 1-49 (2016)
Quantitative measurements of both the copy number and spatial distribution of large fractions of the transcriptome in single cells could revolutionize our understanding of a variety of cellular and tissue behaviors in both healthy and diseased states….
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Publications
Kok Hao Chen, Alistair N. Boettiger, Jeffrey R. Moffitt, Siyuan Wang, Xiaowei Zhuang
Science 348, aaa6090 (2015)
Knowledge of the expression profile and spatial landscape of the transcriptome in individual cells is essential for understanding the rich repertoire of cellular behaviors. Here, we report multiplexed error-robust fluorescence in situ hybridization (MERFISH), a…
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