Author

T. Yan

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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Biochemistry· 4 Biophysics· 3 Cell Biology· 1 Microbiology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 5 Research Focus:cell signaling & trafficking· 4 Research Focus:cell type annotation· 4 Organism:human· 4 Approach:statistical model· 4 Assay:fluorescence / live-cell microscopy· 3 Assay:proteomics· 3 Approach:deep learning· 2

Frequent Co-Authors

A. Gahlmann· 3 shared H. S. Desai· 2 shared K. M. Backus· 2 shared L. M. Boatner· 2 shared A. B. Ball· 1 shared A. C. Turmon· 1 shared A. E. Jones· 1 shared A. M. Achimovich· 1 shared

Activity by Year

2018-2023 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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3 shared papersBiophysics

A. Gahlmann

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Author profile →

9 papers

Recent·Most cited

Chemoproteomics identifies proteoform-selective caspase-2 inhibitors

J. O. Castellon, S. Ofori, E. Armenta, N. Burton, L. M. Boatner, E. E. Takayoshi, M. Faragalla, A. Zhou, K. Tran, J. Shek, T. Yan, H. S. Desai, K. M. Backus

The paper identifies proteoform-selective caspase-2 inhibitors using chemoproteomics, revealing a unique non-catalytic cysteine and validating their selectivity and activity.

bioRxiv · Oct 25, 2023 · PreprintBiochemistry

Defining the Cell Surface Cysteinome using Two-step Enrichment Proteomics

T. Yan, L. Boatner, L. Cui, P. Tontonoz, K. Backus

The paper introduces a two-stage enrichment method called Cys-Surf to profile the cell surface cysteinome, identifying 821 ligandable cysteines and redox-sensitive residues with functional implications.

bioRxiv · Oct 17, 2023Biochemistry

Proximity-labeling chemoproteomics defines the subcellular cysteinome and inflammation-responsive mitochondrial redoxome

T. Yan, A. R. Julio, M. Villanueva, A. E. Jones, A. B. Ball, L. M. Boatner, A. C. Turmon, S. L. Yen, H. S. Desai, A. S. Divakaruni, K. M. Backus

The paper develops Cys-LoC and Cys-LOx methods to map compartment-specific cysteine oxidation states, revealing novel mitochondrial redox modifications in response to inflammation.

bioRxiv · Jan 22, 2023Biochemistry

Prewhitening and Normalization Help Detect a Strong Cross-Correlation Between Daily Wastewater SARS-CoV-2 RNA Abundance and COVID-19 Cases in a Community

M. K. Jeon, B. Li, D. Y. W. Di, T. Yan

The paper shows that prewhitening and normalization improve the detection of a strong cross-correlation between wastewater SARS-CoV-2 RNA and clinical COVID-19 cases.

bioRxiv · Dec 16, 2022Microbiology

Dimerization of iLID Optogenetic Proteins Observed Using 3D Single-Molecule Tracking in Live Bacterial Cells

A. M. Achimovich, T. Yan, A. Gahlmann

The paper uses 3D single-molecule tracking to study optogenetic dimerization in E. coli, finding that iLID activation occurs with high-intensity light even at wavelengths with minimal photon absorption.

bioRxiv · Jul 10, 2022 · PreprintBiophysics

3D observation of large-scale subcellular dynamics in vivo at the millisecond scale

J. Wu, Z. Lu, H. Qiao, X. Zhang, K. Zhanghao, H. Xie, T. Yan, G. Zhang, X. Li, Z. Jiang, X. Lin, L. Fang, B. Zhou, J. Fan, P. Xi, Q. Dai

This paper introduces a method to observe 3D subcellular dynamics in vivo at high resolution and speed, demonstrating its application in various biological systems.

Cell · Jun 1, 2021Peer-reviewedCell Biology

Ginsenoside Rg1 defenses PC-12 cells against hydrogen peroxide-caused damage via up-regulation of miR-216a-5p

G. Yi, L. Liu, C. Lv, Y. Wei, T. Yan

This study shows that ginsenoside Rg1 protects PC-12 cells from hydrogen peroxide damage by up-regulating miR-216a-5p, which reduces apoptosis and autophagy.

bioRxiv · Jun 6, 2019Biochemistry

Computational Correction of Spatially-Variant Optical Aberrations in 3D Single Molecule Localization Microscopy

T. Yan, C. J. Richardson, M. Zhang, A. Gahlmann

This paper corrects spatially-variant optical aberrations in 3D single-molecule localization microscopy using a computational phase retrieval method with a vectorial PSF model.

bioRxiv · Dec 22, 2018Biophysics

Resolving Cytosolic Diffusive States in Bacteria by Single-Molecule Tracking

J. M. Rocha, J. Corbitt, T. Yan, C. Richardson, A. Gahlmann

This study resolves diffusive states in bacterial cytosol using single-molecule tracking and Monte Carlo simulations to account for experimental biases and determine diffusion coefficients, populations, and switching timescales.

bioRxiv · Nov 30, 2018Biophysics