Seq-Scope-eXpanded: spatial omics beyond optical resolution

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Authors and Affiliations

1. Department of Molecular & Integrative Physiology, University of Michigan, Ann Arbor, USA

   Angelo Anacleto, Anna Park, Chun-Seok Cho, Yongha Hwang, Yongsung Kim, Jer-En Hsu, Qingyang Zhao, Xiaoya Zhao, Daniel Kim, Mitchell Schrank, Myungjin Kim & Jun Hee Lee

2. Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, USA

   Weiqiu Cheng, Yichen Si & Hyun Min Kang

3. Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, USA

   Qianlu Feng, Alex William Schrader, Seokjin Yeo & Hee-Sun Han

4. Neuroscience Program, University of Illinois at Urbana-Champaign, Urbana, USA

   Qianlu Feng & Hee-Sun Han

5. Space Planning and Analysis, University of Michigan Medical School, Ann Arbor, USA

   Yongha Hwang

6. Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, USA

   Seokjin Yeo & Hee-Sun Han

7. Division of Dermatology, Department of Medicine, University of California, Los Angeles, USA

   Rosane Teles & Robert L. Modlin

8. Department of Dermatology, University of Michigan, Ann Arbor, USA

   Olesya Plazyo & Johann E. Gudjonsson

9. Department of Pathology and Mary H. Weiser Food Allergy Center, University of Michigan, Ann Arbor, USA

   Chang H. Kim

Contributions

A.A. conceived and designed the study, performed experiments, and developed the Seq-Scope-X methodology with guidance and mentoring from H.-S.H., H.M.K., and J.H.L. A.A., W.C., Y.H., Y.S., A.W.S., and S.Y. performed computational and statistical analyses. Q.F., A.P., C.S.C., Y.K., J.E.H., Q.Z., X.Z., D.K., and M.S. assisted with experiments. M.K. and C.H.K. contributed to data interpretation. R.T., R.L.M., O.P., J.E.G., and M.K. provided tissue samples. A.A., H.-S.H., H.M.K., and J.H.L. drafted the manuscript. All authors reviewed, edited, and approved the final manuscript.

Corresponding authors

Correspondence to Hee-Sun Han, Hyun Min Kang or Jun Hee Lee.

Competing interests

J.H.L. is an inventor on U.S. Patent No. 12,319,955, filed by The Regents of the University of Michigan, which covers the Seq-Scope method for localized detection of nucleic acids in tissue samples as described in this manuscript. Y.H. is currently an employee of Samsung Semiconductor. All other authors declare no competing interests.

Peer review information

Nature Communications thanks Zhangsheng Yu, who co-reviewed with Zhouhui Qi and Xin Yuan, Christoph Ziegenhain, and the other anonymous reviewer(s) for their contribution to the peer review of this work. A peer review file is available.

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