A5040167145- Neurofibromatosis and Schwannoma Cases
- Neuroblastoma Research and Treatments
- Meningioma and schwannoma management
- Neuroendocrine Tumor Research Advances
- Glioma Diagnosis and Treatment
- Single-cell and spatial transcriptomics
- Metabolomics and Mass Spectrometry Studies
- Bioinformatics and Genomic Networks
- Retinal Development and Disorders
- Gene expression and cancer classification
- Molecular Biology Techniques and Applications
- Cancer, Hypoxia, and Metabolism
- Neuroscience and Neural Engineering
- Gene Regulatory Network Analysis
- Mitochondrial Function and Pathology
- RNA modifications and cancer
- Sparse and Compressive Sensing Techniques
- Retinopathy of Prematurity Studies
- Photoreceptor and optogenetics research
- Epigenetics and DNA Methylation
- Image Enhancement Techniques
- Cancer-related molecular mechanisms research
- Cancer Mechanisms and Therapy
- Optical Wireless Communication Technologies
- Colorectal Cancer Treatments and Studies
Oregon Health & Science University
2025
Indiana University – Purdue University Indianapolis
2020-2024
Indiana University School of Medicine
2019-2023
University of Indianapolis
2020-2023
Xi’an University of Posts and Telecommunications
2023
Purdue University West Lafayette
2021
Indiana University
2019
The metabolic heterogeneity and interplay between cells are known as significant contributors to disease treatment resistance. However, with the lack of a mature high-throughput single-cell metabolomics technology, we yet establish systematic understanding intra-tissue cooperative mechanisms. To mitigate this knowledge gap, developed novel computational method, namely, flux estimation analysis (scFEA), infer cell-wise fluxome from RNA-sequencing (scRNA-seq) data. scFEA is empowered by...
Retinal ganglion cells (RGCs) serve as the connection between eye and brain, with this disrupted in glaucoma. Numerous cellular mechanisms have been associated glaucomatous neurodegeneration, useful models of glaucoma allow for precise analysis degenerative phenotypes. Human pluripotent stem (hPSCs) powerful tools studying human disease, particularly underlying neurodegeneration. Thus, efforts focused upon hPSCs an E50K mutation Optineurin (OPTN) gene, a leading cause inherited forms...
Antigen processing and presentation via major histocompatibility complex (MHC) molecules are central to immune surveillance. Yet, quantifying the dynamic activity of MHC class I II antigen remains a critical challenge, particularly in diseases like cancer, infection autoimmunity where these pathways often disrupted. Current methods fall short providing precise, sample-specific insights into presentation, limiting our understanding evasion therapeutic responses. Here, we present PSAA...
Abstract Background and Aim: Spatially resolved transcriptomics (SRT) offers insights into tumor microenvironments (TME), mapping gene cell activities across tissue regions. While systems biology methods utilize SRT data to characterize neighborhood variations, high costs limited scalability hinder large-scale applications clinical correlations. In contrast, histological imaging (HI) provides accessible, high-resolution morphological with context. Existing HI-based expression imputation rely...
Abstract Purpose: Plexiform neurofibromas (PNF) are peripheral nerve sheath tumors that cause significant morbidity in persons with neurofibromatosis type 1 (NF1), yet treatment options remain limited. To identify novel therapeutic targets for PNF, we applied an integrated multi-omic approach to quantitatively profile kinome enrichment a mouse model has predicted responses clinical trials NF1-associated PNF high fidelity. Experimental Design: Utilizing RNA sequencing combined chemical...
Abstract Quantitative assessment of single cell fluxome is critical for understanding the metabolic heterogeneity in diseases. Unfortunately, laboratory-based fluxomics currently impractical, and current computational tools flux estimation are not designed cell-level prediction. Given well-established link between transcriptomic metabolomic profiles, leveraging transcriptomics data to predict only feasible but also an urgent task. In this study, we present FLUXestimator, online platform...
ABSTRACT The metabolic heterogeneity, and interplay between cells their microenvironment have been known as significant contributors to disease treatment resistance. However, with the lack of a mature high-throughput single cell metabolomics technology, we are yet establish systematic understanding intra-tissue heterogeneity cooperation phenomena among populations. To mitigate this knowledge gap, developed novel computational method, namely scFEA (single Flux Estimation Analysis), infer...
Matrix low rank approximation is an effective method to reduce or eliminate the statistical redundancy of its components. Compared with traditional global methods such as singular value decomposition (SVD), local are more advantageous uncover interpretable data structures when clear duality exists between rows and columns matrix. Local equivalent submatrix detection. Unfortunately,existing can detect only submatrices specific mean structure, which may miss a substantial amount true...
<p>Raw log2LFQ values for kinases profiled by MIB/MS</p>
<p>Etv4, Dusp6, Phlda1, and Dusp4 mRNA expression</p>
<p>Reactome G1 Phase Heatmap and Top DEGs</p>
<p>Hallmark KRAS Pathway Heatmap and Top DEGs</p>
<p>Pharmacokinetic properties of LY3214996 and abemaciclib</p>
<p>Western Blots</p>
<p>SPI1 Mouse and ETV4 Human IHC Cytonuclear Analysis</p>
<p>Dosing and schedule of abemaciclib LY3214996</p>
<p>Etv4, Dusp6, Phlda1, and Dusp4 mRNA expression</p>
<p>Hallmark E2F Targets Enrichment Plot and Top DEGs</p>
<p>Table of mice enrolled in drug study</p>
<p>Gene set enrichment analysis of RAS signatures</p>
<p>Statistics from DESeq2</p>
<p>Kaplan Meier Survival Curve and Tolerability</p>
<p>Pharmacokinetic Evaluation of abemaciclib and LY3214996</p>
<p>Gene set enrichment analysis of RAS signatures</p>