A5034711628- RNA Research and Splicing
- Genomics and Chromatin Dynamics
- Immune cells in cancer
- Liver Disease Diagnosis and Treatment
- Neuroinflammation and Neurodegeneration Mechanisms
- Single-cell and spatial transcriptomics
- Genetic Mapping and Diversity in Plants and Animals
- Immune Response and Inflammation
- Phagocytosis and Immune Regulation
- Gene expression and cancer classification
- MicroRNA in disease regulation
- Epigenetics and DNA Methylation
- Pancreatitis Pathology and Treatment
- RNA modifications and cancer
- T-cell and B-cell Immunology
- Acute Myeloid Leukemia Research
- Immune Cell Function and Interaction
- Immune responses and vaccinations
- Reproductive System and Pregnancy
University of California, San Diego
2020-2024
In clinical and experimental NASH, the origin of scar-forming myofibroblast is HSC. We used foz/foz mice on a Western diet to characterize in detail phenotypic changes HSCs NASH model.We examined single-cell expression profiles (scRNA sequencing) purified from normal livers chow diet, with fibrosis during regression after switching back diet. Selected genes were analyzed using immunohistochemistry, quantitative real-time PCR, short hairpin RNA knockdown primary mouse HSCs. Our analysis liver...
Microglia phenotypes are highly regulated by the brain environment, but transcriptional networks that specify maturation of human microglia poorly understood. Here, we characterized stage-specific transcriptomes and epigenetic landscapes fetal postnatal acquired corresponding data in induced pluripotent stem cell (iPSC)-derived microglia, cerebral organoids, following engraftment into humanized mice. Parallel development computational approaches considered transcription factor (TF)...
Regulation of gene expression requires the combinatorial binding sequence-specific transcription factors (TFs) at promoters and enhancers. Prior studies showed that alterations in spacing between TF sites can influence promoter enhancer activity. However, relative importance resulting from naturally occurring insertions deletions (InDels) has not been systematically analyzed. To address this question, we first characterized genome-wide relationships 73 TFs human K562 cells as determined by...
Abstract Regulation of gene expression requires the combinatorial binding sequence-specific transcription factors (TFs) at promoters and enhancers. Prior studies showed that alterations in spacing between TF sites can influence promoter enhancer activity. However, relative importance resulting from naturally occurring insertions deletions (InDels) has not been systematically analyzed. To address this question, we first characterized genome-wide relationships 75 TFs K562 cells as determined...
Tissue resident macrophages and recruited monocyte-derived contribute to host defense but also play pathological roles in a diverse range of human diseases. Multiple macrophage phenotypes are often represented diseased tissue, we lack deep understanding the mechanisms that control diversification. Here use combination genetic, genomic, imaging approaches investigate origins epigenetic trajectories hepatic myeloid cells during diet-induced non-alcoholic steatohepatitis (NASH). The NASH diet...
Abstract Background Growing evidence suggests that distal regulatory elements are essential for cellular function and states. The sequences within these elements, especially motifs transcription factor binding, provide critical information about the underlying programs. However, cooperativities between factors recognize nonlinear multiplexed, rendering traditional modeling methods insufficient to capture mechanisms. Recent development of attention mechanism, which exhibit superior...
Summary Maternal immune activation (MIA) increases likelihood of altered neurodevelopmental outcomes. cytokines are proposed to affect fetal brain development in mice; however, the contribution immunity disorders is largely unexplored. Here, we show that MIA mediated by Toll-like receptor 3 (TLR3), but not other TLRs, induces a specific set behavioral phenotypes including decreased sociability and increased restricted repetitive behavior offspring. Accordingly, these were absent when...
Abstract The fetal period is a critical time for brain development, characterized by neurogenesis, neural migration, and synaptogenesis 1-3 . Microglia, the tissue resident macrophages of brain, are observed as early fourth week gestation 4 thought to engage in variety processes essential development homeostasis 5-11 Conversely, microglia phenotypes highly regulated environment 12-14 Mechanisms which human influences maturation potential contribution neurodevelopmental disorders remain...