Publications

Modeling Infection-Associated Chronic Illness: Murine Borrelia burgdorferi-Driven Connective Tissue Alterations and MAESTRO Clinical Correlates

G Loeser, K Liu, Q Feng, G Pisani, B Pollack, S You, MC Tal
The Journal of Immunology 215 (Supplement_1), vkag141. 938

A self-organized pencil beam that can be used for fast volumetric imaging

H Cao, S You
Nature Methods 23 (5), 884-885

Self-localized ultrafast pencil beam for volumetric multiphoton imaging

H Cao, S Spitz, LY Yu, K Liu, Z Zhang, F Presutti, FM Pramotton, …
Nature Methods, 1-13

Metabolic Imaging of Living Tissues Using Endogenous Autofluorescence Under Single-and Multi-Photon Excitation

K Liu, S You
Microscopy Histopathology and Analytics, MS5B. 5

MAD: Self-supervised image embeddings encode molecular information at single-cell resolution

J Ha, K Liu, Y Kim, S Sinha, S You
Microscopy Histopathology and Analytics, MW1B. 6

Tunable supercontinuum in multimode fiber via bending-induced dispersion modification

LY Yu, H Cao, K Liu, C Li, B Weissbourd, S Kulkarni, S You
Newton

MAD: Microenvironment-Aware Distillation–A Pretraining Strategy for Virtual Spatial Omics from Microscopy

J Han, K Liu, Y Kim, S Sinha, S You
arXiv preprint arXiv:2603.13401

Volumetric imaging of live biological systems via an ultrafast self-localized pencil beam

H Cao, LY Yu, K Liu, S You
High-Throughput Biophotonics: Imaging, Spectroscopy, and Beyond XI, PC1386205

Single shot, 3-photon fluorescence lifetime imaging for deep and fast metabolic microscopy

J Tomkiewicz, F Presutti, S You
Label-free Biomedical Imaging and Sensing (LBIS) 2026, PC1386306

Dynamic Nucleolar Positioning and Metabolic Shifts Accompany Cell-State Transitions in Endometrial Organoids

E Kan, K Liu, G de Nola, E Calo, S You, L Griffith
REPRODUCTIVE SCIENCES 33 (1)

Roadmap on deep learning for microscopy

G Volpe, C Wählby, L Tian, M Hecht, A Yakimovich, K Monakhova, …
Journal of Physics: Photonics 8 (1), 012501

A microphysiological model of human MASLD reveals paradoxical response to resmetirom

DJ Hellen, J Ungerleider, E Tevonian, P Sphabmixay, P Roy, N Meimetis, …
Communications Biology 9 (1), 148

Beyond genetics: Lyme disease’s unexpected role in connective tissue health-findings from a murine model for borrelia burgdorferi infection and the human clinical study MAESTRO …

G Loeser, Q Feng, K Liu, B Pollack, G Pisani, A Kitjasateanphun, S You, …
The Journal of Immunology 214 (Supplement_1), vkaf283. 1711

Lyme disease increases risk for uterine conditions and gynepathologies

PH Colburn, G Blacker, SD Galloway, Q Feng, P Padmanabham, B Lee, …
The Journal of Immunology 214 (Supplement_1), vkaf283. 003

Simultaneous label-free imaging of nucleolar dynamics and subcellular metabolic shifts across tissue contexts

K Liu, EL Kan, H Cao, J Han, G Nola, LG Griffith, E Calo, S You
bioRxiv, 2025.10. 07.681013

Ring deconvolution microscopy: exploiting symmetry for efficient spatially varying aberration correction

A Kohli, AN Angelopoulos, D McAllister, E Whang, S You, K Yanny, …
Nature methods 22 (6), 1311-1320

Deep and Isotropic Structural and Metabolic Imaging for Nucleolar Dynamics in Living Biosystems

K Liu, EL Kan, H Cao, J Han, LG Griffith, E Calo, S You
Bio-Optics: Design and Application, DTu3A. 3

Adaptive Multimode Fiber Source for Label-Free Nonlinear Microscopy

LY Yu, H Cao, K Liu, T Qiu, S You
Novel Techniques in Microscopy, NM3C. 4

Multiplexed Nonlinear Microscopy via High-Peak-Power Tunable Broadband Fiber Source

LY Yu, H Cao, K Liu, S You
Bio-Optics: Design and Application, DM5A. 5

Adaptive multimode fiber source for deep nonlinear microscopy

H Cao, LY Yu, K Liu, S You
Adaptive Optics and Wavefront Control for Biological Systems XI, PC1332809

High-energy, self-organized beam delivered by multimode fiber for volumetric multiphoton imaging

H Cao, K Liu, K Shashaty, S You
Multiphoton Microscopy in the Biomedical Sciences XXV, PC133240Z

Learned, uncertainty-driven adaptive acquisition for photon-efficient scanning microscopy

CT Ye, J Han, K Liu, A Angelopoulos, L Griffith, K Monakhova, S You
Optics Express 33 (6), 12269-12287

Lyme disease increases risk for multiple gynecological conditions

PS Hansen Colburn, G Blacker, S Galloway, Q Feng, PS Padmanabham, …
medRxiv, 2025.03. 03.25323258

Consensus guidelines for cellular label-free optical metabolic imaging: ensuring accuracy and reproducibility in metabolic profiling

I Georgakoudi, MC Skala, KP Quinn, C Stringari, JE Sorrells, AA Heikal, …
Journal of biomedical optics 30 (S2), S23901-S23901

System-and sample-agnostic isotropic three-dimensional microscopy by weakly physics-informed, domain-shift-resistant axial deblurring

J Han, K Liu, KB Isaacson, K Monakhova, LG Griffith, S You
Nature Communications 16 (1), 745

Deep and dynamic metabolic and structural imaging in living tissues

K Liu, H Cao, K Shashaty, LY Yu, S Spitz, FM Pramotton, Z Wan, EL Kan, …
Science Advances 10 (50), eadp2438

Spatiotemporal control of light propogating through a fiber

S You, T Qiu, H Cao, K LIU
US Patent App. 18/678,655

Clipping-assisted dual-fluorophore sensing

SA Boppart, H Tu, S You
US Patent 12,092,576

High-Fidelity and High-Speed Wavefront Shaping by Leveraging Complex Media

LY Yu, S You
Science Advances 10 (27)

EventLFM: event camera integrated Fourier light field microscopy for ultrafast 3D imaging

R Guo, Q Yang, AS Chang, G Hu, J Greene, CV Gabel, S You, L Tian
Light: Science & Applications 13 (1), 144

System-and sample-agnostic isotropic 3D microscopy by weakly physics-informed, domain-shift-resistant axial deblurring

J Han, K Liu, KB Isaacson, K Monakhova, LG Griffith, S You
arXiv preprint arXiv:2406.06337

Biological discovery driven by AI-assisted label-free microscopy

S You
Computational Optical Imaging and Artificial Intelligence in Biomedical …

Leveraging uncertainty quantification in adaptive multiphoton microscopy acquisition

CT Ye, J Han, K Liu, A Angelopoulos, L Griffith, K Monakhova, S You
Computational Optical Imaging and Artificial Intelligence in Biomedical …

Tunable broadband fiber source for multiplexed nonlinear microscopy

L Yu, H Cao, K Liu, T Qiu, S You
Photonics and Optoelectronics, 150

High-speed simultaneous label-free autofluorescence-multiharmonic (hSLAM) microscopy for multicellular dynamics

K Liu, T Qiu, H Cao, LG Griffith, F Wang, S You
Label-free Biomedical Imaging and Sensing (LBIS) 2024, PC1285406

Spectral-temporal-spatial customization via modulating multimodal nonlinear pulse propagation

T Qiu, H Cao, K Liu, LY Yu, M Levy, E Lendaro, F Wang, S You
Nature Communications 15 (1), 2031

Learned, uncertainty-driven adaptive acquisition for photon-efficient multiphoton microscopy

CT Ye, J Han, K Liu, A Angelopoulos, L Griffith, K Monakhova, S You
arXiv e-prints, arXiv: 2310.16102

Adaptive Fiber Source for High-Speed Label-Free Multimodal Multiphoton Microscopy

K Liu, T Qiu, H Cao, S You
Imaging Systems and Applications, ITu5E. 4

An Energetic, Tunable, Ultra-Broadband Fiber Source for Imaging and Spectroscopy

T Qiu, H Cao, K Liu, S You
Optica | Novel Techniques in Microscopy

Label-free optical redox ratio from urinary extracellular vesicles as a screening biomarker for bladder cancer

J Park, RL Kamerer, M Marjanovic, JE Sorrells, S You, R Barkalifa, …
American Journal of Cancer Research 12 (5), 2068

Linear revolution-invariance: Modeling and deblurring spatially-varying imaging systems

A Kohli, A Angelopoulos, S You, K Yanny, L Waller
arXiv preprint

Wound-like tumor periphery in human breast cancer predicts a convergent drug nonresponse

L Li, X Liao, F Fu, G Xi, D Kang, J He, W Guo, L Qiu, Z Han, X Wang, …
bioRxiv, 2021.11. 02.467008

Shift-variant deblurring for rotationally symmetric systems

A Kohli, A Angelopoulos, S You, L Waller
Computational Optical Sensing and Imaging, CTh5A. 4

The cholesterol metabolite 27HC increases secretion of extracellular vesicles which promote breast cancer progression

AE Baek, N Krawczynska, A Das Gupta, SV Dvoretskiy, S You, J Park, …
Endocrinology 162 (7), bqab095

Label-free deep profiling of the tumor microenvironment

S You, EJ Chaney, H Tu, Y Sun, S Sinha, SA Boppart
Cancer research 81 (9), 2534-2544

Label-free multimodal nonlinear imaging of the treatment response in pancreatic tumor patient-derived xenografts in mice

J Park, E Chaney, S You, A Abdelrahman, J Leiting, J Yonkus, P Groves, …
Label-free Biomedical Imaging and Sensing (LBIS) 2021 11655, 116550J

Real-time three-dimensional histology-like imaging by label-free nonlinear optical microscopy

Y Sun, S You, X Du, A Spaulding, ZG Liu, EJ Chaney, DR Spillman Jr, …
Quantitative Imaging in Medicine and Surgery 10 (11), 2177-2190

Simultaneous two-photon activation and imaging of neural activity based on spectral–temporal modulation of supercontinuum light

YZ Liu, C Renteria, CD Courtney, B Ibrahim, S You, EJ Chaney, …
Neurophotonics 7 (4), 045007-045007

Imaging heterogeneity of NAD (P) H in individual extracellular vesicles using fluorescence lifetime imaging microscopy (FLIM)

JE Sorrells, EM Martin, P Mukherjee, E Aksamitiene, S You, A Alex, …
Microscopy Histopathology and Analytics, MW1A. 3

Characterizing treatment response of pancreatic tumor patient-derived xenografts in mice by Simultaneous Label-Free Autofluorescence Multi-Harmonic (SLAM) microscopy

J Park, E Chaney, S You, AM Abdelrahman, JL Leiting, JA Yonkus, …
Clinical and Translational Biophotonics, TM2B. 4

Label-free multi-modal multiphoton imaging for real-time point-of-procedure assessment of core-needle and fine-needle biopsy specimens (Conference Presentation)

L Yang, Y Sun, DR Spillman Jr, S You, SA Boppart
Optical Biopsy XVIII: Toward Real-Time Spectroscopic Imaging and Diagnosis …

Real-time intraoperative diagnosis by deep neural network driven multiphoton virtual histology

S You, Y Sun, L Yang, J Park, H Tu, M Marjanovic, S Sinha, SA Boppart
NPJ precision oncology 3 (1), 33

Multiphoton microscopy for stain-free slide-free histopathology

S You
University of Illinois at Urbana-Champaign

Label-free visualization and characterization of extracellular vesicles in breast cancer

S You, R Barkalifa, EJ Chaney, H Tu, J Park, JE Sorrells, Y Sun, YZ Liu, …
Proceedings of the National Academy of Sciences 116 (48), 24012-24018

Molecular imaging biomarkers

SA Boppart, H Tu, S You, Y Liu
US Patent 10,445,880

Simultaneous label-free autofluorescence-multiharmonic microscopy and beyond

SA Boppart, S You, L Li, J Chen, H Tu
APL photonics 4 (10)

Detection of weak near-infrared optical imaging signals under ambient light by optical parametric amplification

Y Sun, H Tu, S You, C Zhang, YZ Liu, SA Boppart
Optics letters 44 (17), 4391-4394

Label-free optical imaging and characterization of cancer-associated urinary extracellular vesicles: Implications for biomarker discovery

R Barkalifa, S You, H Tu, A Masyr, R Kamerer, M Marjanovic, J Park, …
Cancer Research 79 (13_Supplement), 1936-1936

Label-free molecular profiling for identification of biomarkers in carcinogenesis using multimodal multiphoton imaging

Y Liu, H Tu, S You, EJ Chaney, M Marjanovic, SA Boppart
Quantitative Imaging in Medicine and Surgery 9 (5), 742

Intraoperative visualization of the tumor microenvironment and quantification of extracellular vesicles by label-free nonlinear imaging

Y Sun, S You, H Tu, DR Spillman Jr, EJ Chaney, M Marjanovic, J Li, …
Science Advances 4 (12), eaau5603

Slide-free virtual histochemistry (Part I): development via nonlinear optics

S You, Y Sun, EJ Chaney, Y Zhao, J Chen, SA Boppart, H Tu
Biomedical Optics Express 9 (11), 5240-5252

Slide-free virtual histochemistry (Part II): detection of field cancerization

S You, Y Sun, EJ Chaney, Y Zhao, J Chen, SA Boppart, H Tu
Biomedical Optics Express 9 (11), 5253-5268

Optical parametric amplification of gated confocal reflectance microscopy signals in scattering media

Y Sun, H Tu, S You, S Boppart
Laser Science, JTu3A. 114

Label-free detection and identification of cancer-associated vesicles in human breast cancer

S You, Y Sun, H Tu, R Barkalifa, EJ Chaney, M Marjanovic, AM Higham, …
Cancer Research 78 (13_Supplement), 3044-3044

Intravital imaging by simultaneous label-free autofluorescence-multiharmonic microscopy

S You, H Tu, EJ Chaney, Y Sun, Y Zhao, AJ Bower, YZ Liu, M Marjanovic, …
Nature communications 9 (1), 2125

Intraoperative determination of tumor aggressiveness by real-time label-free nonlinear imaging and characterization of tumor-associated extracellular vesicles (Conference …

Y Sun, S You, H Tu, DR Spillman Jr, M Marjanovic, EJ Chaney, GZ Liu, …
Molecular-Guided Surgery: Molecules, Devices, and Applications IV 10478, 1047805

Intracellular imaging of docosanol in living cells by coherent anti-Stokes Raman scattering microscopy

S You, Y Liu, Z Arp, Y Zhao, EJ Chaney, M Marjanovic, SA Boppart
Journal of biomedical optics 22 (7), 070502-070502

Photonic crystal fiber-generated coherent supercontinuum for fast stain-free histopathology and intraoperative multiphoton imaging (Conference Presentation)

H Tu, S You, Y Sun, DR Spillman Jr, PS Ray, G Liu, SA Boppart
Frontiers in Ultrafast Optics: Biomedical, Scientific, and Industrial …

Intra-operative label-free multimodal multiphoton imaging of breast cancer margins and microenvironment (Conference Presentation)

Y Sun, S You, H Tu, DR Spillman Jr, M Marjanovic, EJ Chaney, GZ Liu, …
Diagnosis and Treatment of Diseases in the Breast and Reproductive System …

Concurrence of extracellular vesicle enrichment and metabolic switch visualized label-free in the tumor microenvironment

H Tu, Y Liu, M Marjanovic, EJ Chaney, S You, Y Zhao, SA Boppart
Science advances 3 (1), e1600675

Rapid diagnosis and differentiation of microbial pathogens in otitis media with a combined Raman spectroscopy and low-coherence interferometry probe: toward in vivo implementation

Y Zhao, GL Monroy, S You, RL Shelton, RM Nolan, H Tu, EJ Chaney, …
Journal of biomedical optics 21 (10), 107005-107005

Raman spectroscopic analysis reveals abnormal fatty acid composition in tumor micro-and macroenvironments in human breast and rat mammary cancer

S You, H Tu, Y Zhao, Y Liu, EJ Chaney, M Marjanovic, SA Boppart
Scientific Reports 6 (1), 32922

Stain-free histopathology by programmable supercontinuum pulses

H Tu, Y Liu, D Turchinovich, M Marjanovic, JK Lyngsø, J Lægsgaard, …
Nature photonics 10 (8), 534-540

Spectroscopic Raman analysis of tumor micro-And macroenvironments in human breast and rat mammary cancer

S You, H Tu, Y Zhao, Y Liu, EJ Chaney, M Marjanovic, SA Boppart
Cancer Imaging and Therapy, CTu4A. 5

Raman spectroscopic analysis of fatty acids in tumor micro-and macroenvironments in breast cancer

S You
University of Illinois at Urbana-Champaign

Suppressing short-term polarization noise and related spectral decoherence in all-normal dispersion fiber supercontinuum generation

Y Liu, Y Zhao, J Lyngsø, S You, WL Wilson, H Tu, SA Boppart
Journal of lightwave technology 33 (9), 1814-1820

Noninvasive vasculature detection using laser speckle imaging in avian embryos through intact egg in early incubation stage

L Yang, S You, L Zhang, T Yang, P Li, J Lu
Biomedical optics express 4 (1), 32-37