# equal contribution. * corresponding author.
35. Landscape Expansion Microscopy Reveals Interactions between Membrane and Phase-Separated Organelles
Y. Zhuang, Z. Zhang, Z. Dai, X. Shi*
J. Cell Biol. (2026) 225, e202502035 | bioRxiv Preprint (Dec. 13, 2025) | DOI: 10.1083/jcb.202502035
Get land-ExM
in 2.5 min
34. PCM1 coordinates centrosome asymmetry with polarized endosome dynamics to regulate
daughter cell fate
X. Zhao*, V. Mouilleau, Y. Wang, A.C. Solak, J.Q. Garcia, X. Chen, X. Shi, C.J. Wilkinson, L.A. Royer*,
Z. Dong*, S. Guo*
Nat. Commun, 16, 10728 (2025) | PMID: 41315244 | DOI: 10.1038/s41467-025-65756-2
33. CDCP1/mitochondrial Src axis increases electron transport chain function to promote metastasis in
triple-negative breast cancer
J.A. Woytash, A.E.Y.T. Lefebvre, Z. Zhang, B. Xu, S.A. Harchenko, H.T. Le, A.R. McColloch, X. Shi,
M.A. Digman, & O.V. Razorenova*
British Journal of Cancer, 133, 1265 (2025) | DOI: 10.1038/s41416-025-03163-6
32. Cationic peptides cause memory loss through endophilin-mediated endocytosis
E.G. Stokes, J.J. Vasquez, G. Azouz, M. Nguyen, A. Tierno, Y. Zhuang, V.M. Galinato, M. Hui,
M. Toledano, I. Tyler, X. Shi, R.F. Hunt, J. Aoto, K.T. Beier*
Nature, 638, 479 (2025) | PMID: 38045269 | DOI: 10.1038/s41586-024-08413-w
31. RBBP6 anchors pre-mRNA 3′ end processing to nuclear speckles for efficient gene expression
Y. Yoon, E. Bournique, L.V. Soles, H. Yin, H.-F. Chu, C. Yin, Y. Zhuang, X. Liu, L. Liu, J. Jeong, C. Yu,
M. Valdez, L. Tian, L. Huang, X. Shi, G. Seelig, F. Ding, L. Tong, R. Buisson, Y. Shi*
Mol. Cell, 85, 555 (2025) | DOI: 10.1016/j.molcel.2024.12.016
30. Coaching ribosome biogenesis from the nuclear periphery
Y. Zhuang, X. Guo, O. Razorenova, C. E. Miles, W. Zhao*, X. Shi*
(2024) | bioRxiv Preprint download (June 22, 2024) | PMID: 38948754
29. Proximity Labeling Expansion Microscopy (PL-ExM) evaluates interactome labeling techniques
S. Park, X. Wang, Y. Mo, S. Zhang, X. Li, K.C. Fong, C. Yu, A.A. Tran, L. Scipioni, Z. Dai,
X. Huang, L. Huang, X. Shi*
J. Mater. Chem. B, 12, 8335 - 8348 (2024) | bioRxiv Preprint (Nov. 13, 2023) | PMID: 38014020
​
**featured as the back cover **
28. Label-Retention Expansion Microscopy (LR-ExM) for Enhanced Fluorescent Signals using
Trifunctional Probes
Y. Zhuang, X. Shi*
Curr Protoc. 4 (1), e973 (2024) | PMID: 38265180
27. Expansion Microscopy of Ciliary Proteins
S. Park, X. Shi*
Cilia: Methods and Protocols 79-88 (2023)| PMID: 37856018
Part of the Methods in Molecular Biology book series (MIMB, volume 2725)
26. Expansion microscopy: A chemical approach for super-resolution microscopy
Y. Zhuang, X. Shi*
Current Opinion in Structural Biology 81, 102614 (2023) | PMID: 37253290
25. Label-Retention Expansion Microscopy (LR-ExM) Enables Super-Resolution Imaging and
High-Efficiency Labeling
S. Park, Y. Zhuang, X. Shi*
JoVE e63793 (2022) | PMID: 36314803
24. Label-retention expansion microscopy
X. Shi#*, Q. Li#, Z. Dai, A.A.Tran, S. Feng, A.D. Ramirez, Z. Lin, X. Wang, T.T. Chow, J. Chen,
D. Kumar, A. McColloch, J.F. Reiter, E.J. Huang, I.B. Seiple*, B. Huang*
J. Cell Biol. 220 (9), e202105067 (2021) | bioRxiv (2019) | PMID: 34228783
† image on the table of contents page | [highlighted by PreLight]
23. Polarized endosome dynamics engage cytoplasmic Par-3 that recruits dynein during
asymmetric cell division
X. Zhao, J.Q. Garcia, K. Tong, X. Chen, B. Yang, Q. Li, Z. Dai, X. Shi, I.B. Seiple, B. Huang, S. Guo*
Science Advances 7 (24), eabg1244 (2021) | PMID: 34117063
22. A ciliopathy complex builds distal appendages to initiate ciliogenesis
D. Kumar, A. Rains, V. Herranz-Pérez, Q. Lu, X. Shi, D.L. Swaney, E. Stevenson, N.J. Krogan,
B. Huang, C. Westlake, J.M. Garcia-Verdugo, B. Yoder, J.F. Reiter*
J. Cell Biol. 220 (9), e202011133 (2021) | bioRxiv (2021) | PMID: 34241634
21. Kinase-mediated RAS signaling via membraneless cytoplasmic protein granules
A. Tulpule#, J. Guan#, D.S. Neel#, H.R. Allegakoen, Y.P. Lin, D. Brown, Y.-T. Chou, A. Heslin, N.
Chatterjee, S. Perati, S. Menon, T.A. Nguyen, J. Debnath, A.D. Ramirez, X. Shi, B. Yang, S. Feng,
S. Makhija, B. Huang*, T.G. Bivona*
20. Neurotoxic microglia promote TDP-43 proteinopathy in progranulin deficiency
J. Zhang, D. Velmeshev, K. Hashimoto, Y.-H. Huang, J. W. Hofmann, X. Shi, J. Chen, A. M. Leidal,
J. G. Dishart, M. K. Cahill, K. W. Kelley, S. A. Liddelow, W. W. Seeley, B. L. Miller, T. C. Walther,
R. V. Farese Jr., J. P. Taylor, E. M. Ullian, B. Huang, J. Debnath, T. Wittmann, A. R. Kriegstein
& E. J. Huang*
19. Nanotopography enhances dynamic remodeling of tight junction proteins through cytosolic
complexes
X. Huang, X. Shi, M.E. Hansen, C.L. Nemeth, A. Ceili, B. Huang, T. Mauro, M. Koval,
T.A. Desai*
Before UCI
18. Deformed alignment of super-resolution images for semi-flexible structures
​X. Shi, G. Garcia, Y. Wang, J. Reiter, B. Huang*
17. Branching ratio measurements of the predissociation of 12C16O by time-slice velocity-map \
ion imaging in the energy region from 106,250 to 107,800 cm-1.
X. Shi#, H. Gao#, Q.-Z. Yin, Y.-C. Chang, R. C. Wiens, W. M. Jackson, C. Y. Ng*
J. Phys. Chem. A 122 (41) (2018), 8136-8142
† cover image
16. Local enrichment of HP1alpha at telomeres alters their structure and regulation of telomere
protection
T. Chow, X. Shi, J.H. Wei, J. Guan, G. Stadler, B. Huang, E. Blackburn*
15. Super-resolution microscopy reveals that disruption of ciliary transition zone architecture is a cause of
Joubert syndrome
X. Shi#, G. Garcia#, J. C. Van De Weghe, R. McGorty, G. J. Pazour, D. Doherty, B. Huang*,
J. F. Reiter*
Nat. Cell Biol. 19 (10), 1178-1188 (2017). [bioRxiv 2017] | PMID: 28846093
​ † cover image
14. Branching Ratios in Vacuum Ultraviolet Photodissociation of CO and N2: Implications for
Oxygen and Nitrogen Isotopic Compositions of the Solar Nebula
X. Shi, Q.-Z. Yin, H. Gao, Y. C. Chang, W. M. Jackson, R. Wiensand C. Y. Ng*
13. Tracking multiple genomic elements using correlative CRISPR imaging and sequential DNA FISH
J. Guan, H. Liu, X. Shi, S. Feng, B. Huang*
Biophys. J. 112 (6), 1077-1084 (2017)
12. A High-Resolution Vacuum Ultraviolet Laser Photoionization and Photoelectron Study of the
Co Atom
H. Huang, H. Wang, Z. Luo, X. Shi, Y.-C. Chang, C. Y. Ng*
11. Branching Ratio Measurements for Vacuum Ultraviolet Photodissociation of 12C16O
H. Gao, Y. Song, Y.-C. Chang, X. Shi, Q.-Z. Yin, R. C. Wiens, W. M. Jackson, C. Y. Ng*
10. Rovibronically selected and resolved two-color laser photoionization and photoelectron study of
cobalt carbide cation
H. Huang, Y.-C. Chang, Z. Luo, X. Shi, C.-S. Lam, K.-C. Lau, and C. Y. Ng*
9. High-level ab initiopredictions for the ionization energy, bond dissociation energies and
heats of formation of cobalt carbide (CoC) and its cation (CoC+)
K.-C. Lau, Y. Pan, C.-S. Lam, H. Huang, Y.-C. Chang, Z. Luo, X. Shi, and C. Y. Ng*
8. A High-Resolution Photoionization and Photoelectron Study of 58Ni using a Vacuum
Ultraviolet Laser
X. Shi, H. Huang, B. Jacobson, Y. C. Chang, Q.-Z. Yin, and C. Y. Ng*
7. Branching Ratio measurements of the Predissociation of 12C16O by Time-Slice Velocity-
Map Ion Imaging in the Vacuum Ultraviolet region from 108 000 to 110 500 cm−1
H. Gao, Y. Song, L. Yang, X. Shi, Q.-Z. Yin, C. Y. Ng, and W. M. Jackson*
6. Communication: Branching Ratio measurements in the Predissociation of 12C16O by
Time-Slice Velocity-Map Ion Imaging in the Vacuum Ultraviolet region
H. Gao, Y. Song, L. Yang, X. Shi, Q.-Z. Yin, C. Y. Ng, and W. M. Jackson*
5. Rovibronically Selected and Resolved Two-color Laser Photoionization and Photoelectron
study of Nickel Carbide Cation
Y. C. Chang, X. Shi, K-C Lau, Q.-Z. Yin, H. T. Liou, and C. Y. Ng*
4. High-level ab initiopredictions for the ionization energy, bond dissociation energies and
heats of formations of Nickel carbide (NiC) and its cation (NiC+)
K.-C. Lau, Y. C. Chang, X. Shi, C. Y. Ng*
3. Comment on ''Experimental test of self-shielding in vacuumultraviolet photodissociation of CO''
Q.-Z. Yin*, X. Shi, C. Chang, C. Y. Ng
2. The temporal changes in the emission spectrum of Comet 9P/ Tempel 1 after Deep Impact
W. M. Jackson, X. Yang, X. Shi, and A. L. Cochran*
1. Quantum chemical study of cyclic dipeptides
Y. Zhu, M. Tang*, X. Shi, Y. Zhao