Liu, Yang - University of Pittsburgh - Biomedical Optical Imaging Laboratory

个人简介

Ph.D. in Biomedical Engineering, Northwestern University, 2006 M.S. in Chemistry, University of Chicago, 2001 B.S. in Chemistry, Nankai University, 1999

研究领域

The laboratory of Dr. Yang Liu integrates multidisciplinary approaches of engineering, chemistry, physics and biology for precision medicine. We exploit the power of light and develops a suite of imaging technologies and quantitative analysis tools including super-resolution fluorescence microscopy, single-molecule detection, quantitative phase microscopy, optical coherence microscopy, light-sheet microscopy and machine learning methods. We improve the imaging throughput and robustness, while making it simpler, cheaper and easier to use. We apply these state-of-the-art imaging tools to map molecular-scale chromatin organization and epigenomic signatures in their original spatial context on patient-derived samples such as tissue, blood, sputum and organoid. We apply them to improve personalized cancer detection and prevention in colon, lung, pancreas and prostate as well as our understanding of tissue microenvironment in inflammatory bowel diseases.

近期论文

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Robust emitter localization with enhanced harmonic analysis Ma H, Liu Y Optics Letters, 46(23), 5798-5801, 2021 Enhanced super-resolution microscopy by extreme value based emitter recovery Ma H, Jiang W, Xu J, Liu Y Scientific Reports, 11, 20417, 2021 Embedded nanometer position tracking based on enhanced phasor analysis Ma H, Liu Y Optics Letters, 46, 3825-3828, 2021 Application of convolutional neural networks towards nuclei segmentation in localization-based super-resolution fluorescence microscopy images Mela CA, Liu Y BMC Bioinformatics, 22, 325, 2021 Probing Chromatin Compaction and Its Epigenetic States in situ With Single-Molecule Localization-Based Super-Resolution Microscopy Xu J, Liu Y Frontiers in Cell and Developmental Biology, 9, 653077, 2021 Integrative proteomics identifies thousands of distinct, multi-epitope, and high-affinity nanobodies Xiang Y, Sang Z, Bitton L, Xu J, Liu Y, Schneidman-Duhovny D, Shi Y Cell Systems, 12, 220–234, 2021 Optimized Stochastic Optical Reconstruction Microscopy for Imaging Chromatin Structure in Pathological Tissue Xu J, Ma H, Liu Y Current Protocols in Cytometry, 94(1), e78, 2020 Super-resolution localization microscopy: Toward high throughput, high quality, and low cost Ma H, Liu Y APL Photonics, 5, 060902, 2020 Three-Dimensional Nanoscale Nuclear Architecture Mapping of Rectal Biopsies Detects Colorectal Neoplasia in Patients with Inflammatory Bowel Disease Uttam S, Hashash JG, LaFace J, Binion D, Regueiro M, Hartman DJ, Brand RE, Liu Y Cancer Prevention Resesarch, 12(8), 527-538, 2019 A guide to visualizing the spatial epigenome with super‐resolution microscopy Xu J, Liu Y The FEBS Journal, 286(16): 3095-3109, 2019 Imaging Higher-order Chromatin Structures in Single Cells Using Stochastic Optical Reconstruction Microscopy Xu J, Liu Y Bio-protocol, 9(3): e3160, 2019 ROS-Induced R Loops Trigger a Transcription-Coupled but BRCA1/2-Independent Homologous Recombination Pathway through CSB Teng Y, Yadav T, Duan M, Tan J, Xiang Y, Gao B, Xu J, Liang Z, Liu Y, Nakajima S, Shi Y, Levine AS, Zou L, and Lan L Nature Communications, 9: 4115, 2019 Fourier phase based depth-resolved nanoscale nuclear architecture mapping for cancer detection Uttam S, Liu Y Methods, 136: 134-151, 2018 SIRT6 facilitates directional telomere movement upon oxidative damage Gao Y, Tan J, Jin J, Ma H, Chen X, Leger B, Xu J, Spagnol S.T., Dahl K.N., Levine, A.S., Liu Y, Lan L Scientific Reports, 8: 5401, 2018 A simple marker-assisted three-dimensional nanometer drift correction method for super-resolution microscopy Ma H, Xu J, Jin J, Huang Y, Liu Y Biophysical Journal, 112: 2196-2208, 2017 A simple and cost-effective setup for super-resolution localization microscopy Ma H, Fu R. Xu J, Liu Y Scientific Reports, 7(1): 1542, 2017 SSRP1 cooperates with PARP and XRCC1, facilitating single strand break repair through chromatin priming Gao Y, Li C, Wei L, Teng Y, Nakajima S, Chen X, Xu J, Legar B, Ma H, Spagnol ST, Wan Y, Dahl KN, Liu Y, Levine A, Lan L Cancer Research, 77: 2674-2685, 2017 Stochastic optical reconstruction microscopy (STORM) Xu J, Ma H, Liu Y Current Protocols in Cytometry, 81: 12.46.1–12.46.27, 2017 Quantitative phase imaging to improve the diagnostic accuracy of urine cytology Pham HV, Pantanowitz L, Liu Y Cancer Cytopathology, 124:641-650, 2016 Fourier phase in Fourier-domain optical coherence tomography Uttam S, Liu Y Journal of the Optical Society of America A, 32(12):2286-2306, 2015