Biology subjects

Li, E. J.

Publications and source records attributed to Li, E. J..

4 recordsLinked to original sources

bioRxiv2026

L-5--glutamine PET of Breast Cancer: Kinetic Analysis in Mouse Models to Evaluate Glutamine Metabolism

BackgroundGlutamine addiction is a hallmark of aggressive tumors, yet glutaminase (GLS1) inhibitor CB-839 showed disappointing anti-tumor efficacy in clinical trials. L-5-[{superscript 1}{superscript 1}C]-glutamine ([{superscript 1}{superscript 1}C]glutamine) PET enables non-invasive assessment of glutamine metabolism in vivo, providing a tool to test mechanistic hypotheses, and identify tumors likely to respond to GLS1 inhibition: focusing on compartmentation of GLS1-derived glutamate, CB-839 impact on flux, and reciprocal glutamine synthesis. MethodsGlutaminolytic TNBC (HCC1806) and poorly glutaminolytic ER+ (MCF-7) xenograft mice with or without CB-839, underwent dynamic [11C]glutamine PET. HPLC quantified fractional radioactivity of [11C]glutamine, soluble metabolites ([11C]glutamate, [11C]CO2), and macromolecule-incorporated metabolites from blood and tumor. A four-tissue compartment model characterized GLS1 activity (kGLS) and flux, glutamine synthetase activity (kGS), and subcellular glutamate distribution by comparing single vs. dual glutamate pool models. Averaged tumor curves and HPLC-derived tumor metabolites were fit. Monte Carlo simulations assessed parameter estimation performance. ResultsThe single glutamate pool model showed high correlations between kGLS and other parameters, yielding inflated kGLS estimates. The dual glutamate pool model reduced correlations, improved kGLS recovery, and yielded subcellular glutamate distributions consistent with in vitro measurements. In TNBC, kGLS was 3-fold higher than ER+ tumors (non-overlapping 95% CI) with glutamate concentrated in the mitochondrial compartment. CB-839 reduced kGLS in TNBC and depleted mitochondrial glutamate (non-overlapping 95% CI), though glutaminolytic flux showed no distinguishable change. ER+ tumors showed higher kGS compared to TNBC. Conclusion[11C]glutamine PET kinetic analysis reveals distinct glutamine metabolic phenotypes in breast cancer subtypes. Preserved glutaminolytic flux and cytosolic glutamate in TNBC provide mechanistic hypotheses for clinical failure of GLS1 inhibitors, informing ongoing studies.

bioengineering↗

bioRxiv2026

A multi-modal flow phantom for quantitative PET/Spectral CT

PurposeIn this work, we aimed to establish a flow phantom for multi-modal PET and spectral CT imaging to improve blood flow quantification. MethodsA modular flow phantom was built with materials compatible with both PET and spectral CT. A peristaltic pump was used to allow for recirculation. Pores were installed through the aorta to allow for tissue exchange between the blood and tissue compartments, and valves were placed in line with the aorta to control the pressure gradient between compartments. We characterized the system using saline bolus experiments, dynamic PET imaging, and iodine-based spectral CT acquisitions. A blood flow (K1) of 1.0 mL/min/mL with a pressure range of approximately 1.0-3.0 psi was targeted. Using compartmental modeling, we estimate K1 across phantom configurations and evaluate the consistency of perfusion-related parameters derived from saline, PET, and spectral CT measurements. ResultsWith the four pore, two valve configuration, target K1 of 1.0 mL/min/mL was achieved with a physiologic pressure range (2.2-3.5 psi) and a pump speed of 150 rpm. Further, the flow phantom was also able to recapitulate K1 across a range of values through adjustable modifications to the phantom configuration. ConclusionsWe present a modular multimodal flow phantom with a tissue-mimicking compartment, vascular tubing with an adjustable number of pores and valves, and 3D-printed components to support tunable exchange between blood-pool and tissue compartments and controlled dynamic perfusion imaging with same-session PET and spectral CT. Such a setup will enable the development of multi-modal approaches for evaluating tissue perfusion.

bioengineering↗

bioRxiv2024

Delineating the Spatial Patterns of Cell Type-Specific Stemness Using a Statistical Deconvolution Model

SummaryCellular stemness is a cells ability to self-renew and differentiate into specialized cell types. In spatial transcriptomics (ST), researchers can use gene activity to quantify stemness and the associated spatial locations, allowing for the investigation of cellular profiles in their natural context. However, many ST platforms provide data with low resolution, and each data spot (i.e., spatial location) contains multiple cell types, which hinders the investigation of cell type-specific (CTS) behaviors, such as cell stemness, at different spatial locations. We developed a bivariate kernel-weighted regression method with constrained optimization to estimate CTS stemness as a function of spatial location and developed accompanying visualization tools. Through simulation studies and an application to real breast cancer ST data from the 10x Genomics Visium platform, we demonstrated that our method can accurately estimate CTS stemness and help shed light on the interplay among cell type, tissue structure, and stemness. Availability and implementationAn R Shiny app implementing the proposed method is available at GitHub (https://github.com/ericli0480/stemness-deconvolution/). Supplementary informationAvailable in a separate PDF file

bioinformatics↗

bioRxiv2022

Responses to song playback differ in sleeping versus anesthetized songbirds

Vocal learning in songbirds is mediated by a highly localized system of interconnected forebrain regions, including recurrent loops that traverse the cortex, basal ganglia, and thalamus. This brain-behavior system provides a powerful model for elucidating mechanisms of vocal learning, with implications for learning speech in human infants, as well as for advancing our understanding of skill learning in general. A long history of experiments in this area has tested neural responses to playback of different song stimuli in anesthetized birds at different stages of vocal development. These studies have demonstrated selectivity for different song types that provide neural signatures of learning. In contrast to the ease of obtaining responses to song playback in anesthetized birds, song-evoked responses in awake birds are greatly reduced or absent, indicating that behavioral state is an important determinant of neural responsivity. Song-evoked responses can be elicited in sleeping as well as anesthetized zebra finches, and the selectivity of responses to song playback in adult birds tends to be highly similar between anesthetized and sleeping states, encouraging the idea that anesthesia and sleep are highly similar. In contrast to that idea, we report evidence that cortical responses to song playback in juvenile zebra finches (Taeniopygia guttata) differ greatly between sleep and urethane anesthesia. This finding indicates that behavioral states differ in sleep versus anesthesia and raises questions about relationships between developmental changes in sleep activity, selectivity for different song types, and the neural substrate for vocal learning. SignificancePatterns of spiking activity based on electrophysiological recordings in many different taxa are known to be heavily dependent on behavioral state. Neural activity patterns are frequently similar between sleep and anesthesia, which has encouraged the idea that similar states characterize sleep and anesthesia. Based on comparisons across studies, we report that activity patterns are highly dissimilar between sleep and urethane anesthesia in a cortical region of juvenile songbirds. These data argue against the idea that similar behavioral states are achieved in sleep versus anesthesia.

neuroscience↗