Author

Chee-Huat Linus Eng

California Institute of Technology

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Systems Biology· 2 Bioinformatics· 1 Immunology· 1

Signature Assays, Organisms & Methods

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Assay:spatial transcriptomics· 4 Approach:experimental assay· 3 Research Focus:cell type annotation· 2 Research Focus:clustering· 2 Research Focus:differential expression· 2 Organism:mouse· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1

Frequent Co-Authors

Long CaiiD· 3 shared Guo‐Cheng YuaniD· 2 shared Jina YuniD· 2 shared Nico G PiersoniD· 2 shared Sheel ShahiD· 2 shared Yodai TakeiiD· 2 shared Arpan SarkariD· 1 shared Carolina S. Lopes· 1 shared

Activity by Year

2018-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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3 shared papersSystems Biology

Long CaiORCID

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Author profile →

4 papers

Recent·Most cited

A Spatially Coordinated Keratinocyte-Fibroblast Circuit Recruits MMP9+ Myeloid Cells to Drive IFN-I-Driven Inflammation in Photosensitive Autoimmunity

Yuqing Wang, Khashayar Afshari, Nazgol‐Sadat Haddadi, Carolina S. Lopes, Chee-Huat Linus Eng, Leah M. Whiteman, Nuria Martinez, Pyae Phyo Kyawe, Ksenia S. Anufrieva, Kevin Wei, Kirsten L. Frieda, Misha A. Rosenbach, Ruth Ann Vleugels, Stefania Gallucci, John E. Harris, , Manuel G. Garber

This study identifies MMP9+ CD14+ myeloid cells as key drivers of UVB-induced IFN-I-driven inflammation in cutaneous lupus and dermatomyositis through a keratinocyte-fibroblast-myeloid circuit.

Nature Immunology · Apr 24, 2026Peer-reviewedImmunology

Giotto, a toolbox for integrative analysis and visualization of spatial expression data

Ruben Dries, Qian Zhu, Rui Dong, Chee-Huat Linus Eng, Huipeng Li, Kan Liu, Yuntian Fu, Tianxiao Zhao, Arpan Sarkar, Feng Bao, Rani E. George, Nico G Pierson, Long Cai, Guo‐Cheng Yuan

Giotto is a toolbox for analyzing and visualizing spatial transcriptomic and proteomic data, offering integration with single-cell RNA-seq and supporting diverse datasets.

Genome biology · Mar 8, 2021Peer-reviewedBioinformatics

Global architecture of the nucleus in single cells by DNA seqFISH+ and multiplexed immunofluorescence

Yodai Takei, Jina Yun, Shiwei Zheng, Noah Ollikainen, Nico G Pierson, Jonathan A. White, Sheel Shah, Julian Thomassie, Shengbao Suo, Chee-Huat Linus Eng, Mitchell Guttman, Guo‐Cheng Yuan, Long Cai

The paper maps chromatin states, DNA loci, and gene expression in single mouse embryonic stem cells using DNA seqFISH+ and immunofluorescence, revealing nuclear zones and subpopulations with distinct chromatin features.

Nature · Jan 27, 2021Peer-reviewedSystems Biology

Dynamics and spatial genomics of the nascent transcriptome in single mESCs by intron seqFISH

Sheel Shah, Yodai Takei, Wen Zhou, Eric Lubeck, Jina Yun, Chee-Huat Linus Eng, Noushin Koulena, Christopher J. Cronin, Christoph Karp, Eric J. Liaw, Mina Amin, Long Cai

This study uses seqFISH to image nascent transcription active sites in single mouse embryonic stem cells, revealing dynamic spatial distribution and variability in transcription activity.

Cell · Jun 7, 2018Peer-reviewedSystems Biology