XYZeq: Spatially resolved single-cell RNA sequencing reveals expression heterogeneity in the tumor microenvironment

Author:

Lee Youjin1234,Bogdanoff Derek56,Wang Yutong78ORCID,Hartoularos George C.91011ORCID,Woo Jonathan M.1234,Mowery Cody T.123412ORCID,Nisonoff Hunter M.8ORCID,Lee David S.31011ORCID,Sun Yang31011ORCID,Lee James13ORCID,Mehdizadeh Sadaf2ORCID,Cantlon Joshua14ORCID,Shifrut Eric1234ORCID,Ngyuen David N.123415ORCID,Roth Theodore L.1231216ORCID,Song Yun S.171819ORCID,Marson Alexander123415ORCID,Chow Eric D.56ORCID,Ye Chun Jimmie1019201121ORCID

Affiliation:

1. Department of Microbiology and Immunology, University of California, San Francisco, San Francisco, CA 94143, USA.

2. Diabetes Center, University of California, San Francisco, San Francisco, CA 94143, USA.

3. Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA 94720, USA.

4. J. David Gladstone Institutes, San Francisco, CA 94158, USA.

5. Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA.

6. Center for Advanced Technology, University of California, San Francisco, San Francisco, CA 94158, USA.

7. Graduate Group in Biostatistics, University of California, Berkeley, CA 94720, USA.

8. Center for Computational Biology, University of California, Berkeley, CA 94720, USA.

9. Graduate Program in Biological and Medical Informatics, University of California, San Francisco, San Francisco, CA 94158, USA.

10. Division of Rheumatology, Department of Medicine, University of California, San Francisco, CA 94143, USA.

11. Institute for Human Genetics, University of California, San Francisco, San Francisco, CA 94143, USA.

12. Medical Scientist Training Program, University of California, San Francisco, San Francisco, CA 94143, USA.

13. Division of Hematology and Oncology, University of California, San Francisco, San Francisco, CA 94143, USA.

14. Scienion AG, Volmerstrasse 7b, 12489 Berlin, Germany.

15. Department of Medicine, University of California, San Francisco, San Francisco, CA 94143, USA.

16. Biomedical Sciences Graduate Program, University of California, San Francisco, San Francisco, CA 94143, USA.

17. Computer Science Division, University of California, Berkeley, CA 94720, USA.

18. Department of Statistics, University of California, Berkeley, CA 94720, USA.

19. Chan Zuckerberg Biohub, San Francisco, CA 94158, USA.

20. Parker Institute for Cancer Immunotherapy, University of California, San Francisco, San Francisco, CA 94129, USA.

21. Gladstone–UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA.

Abstract

XYZeq is a novel scalable platform that directly encodes spatial location from tissue into single-cell RNA sequencing libraries.

Funder

National Institutes of Health

T32 Ruth Kirschstein Fellowship

University of California, San Francisco

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

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