A5102932324- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- RNA and protein synthesis mechanisms
- Cancer Genomics and Diagnostics
- RNA modifications and cancer
- Chromosomal and Genetic Variations
- Cancer-related gene regulation
- Cancer, Hypoxia, and Metabolism
- 3D Printing in Biomedical Research
- Bone Tissue Engineering Materials
- Genetic factors in colorectal cancer
- DNA and Nucleic Acid Chemistry
- RNA Research and Splicing
- CRISPR and Genetic Engineering
- Fungal and yeast genetics research
- Advanced biosensing and bioanalysis techniques
- Multimodal Machine Learning Applications
- Immune cells in cancer
- DNA Repair Mechanisms
- Cancer-related molecular mechanisms research
- Polymer Surface Interaction Studies
- Blood transfusion and management
- Translation Studies and Practices
- Characterization and Applications of Magnetic Nanoparticles
- Protein Degradation and Inhibitors
George Washington University Hospital
2025
Case Western Reserve University
2016-2023
George Washington University
2023
Eunice Kennedy Shriver National Institute of Child Health and Human Development
2010-2021
National Institutes of Health
2010-2021
University School
2016-2020
National Institute of Standards and Technology
2012
National Taiwan Normal University
2008
Understanding how complex networks of genes integrate to produce dividing cells is an important goal that limited by the difficulty in defining function individual genes. Current resources for systematic identification gene such as siRNA libraries and collections deletion strains are costly organism specific. We describe here integration profiling, a novel approach identify eukaryotic based upon dense maps transposon integration. As proof concept, we used Hermes generate library 360,513...
ABSTRACT Introduction Massive transfusion protocols (MTPs) ensure the timely and life-saving delivery of blood products to patients who are rapidly exsanguinating. Although essential, MTPs also highly resource-intensive. Effective MTP implementation must balance resources hospital with needs patient population that they serve, as well avoid instances unjustified activations. Toward this goal, we implemented a set policy improvements our institution’s aimed at ensuring appropriate clinical...
Heterochromatin functions as a scaffold for factors responsible gene silencing and chromosome segregation. can be assembled by multiple pathways, including RNAi RNA surveillance. We identified that form heterochromatin using dense profiles of transposable element integration in Schizosaccharomyces pombe. The candidates include large number essential proteins such four canonical mRNA cleavage polyadenylation factors. find Iss1, subunit the poly(A) polymerase module, plays role forming...
Transposable elements (TE) have both negative and positive impact on the biology of their host. As a result, balance is struck between host TE that relies directing integration to specific genome territories. The extraordinary capacity DNA sequencing can create ultra dense maps are being used study mechanisms position integration. Unfortunately, great increase in numbers insertion sites detected comes with cost not knowing which positions rare targets sustain high insertions. To address this...
Commonly-mutated genes have been found for many cancers, but less is known about mutations in cis-regulatory elements. We leverage gains tumor-specific enhancer activity, coupled with allele-biased mutation detection from H3K27ac ChIP-seq data, to pinpoint potential enhancer-activating colorectal cancer (CRC). Analysis of a genetically-diverse cohort CRC specimens revealed that microsatellite instable (MSI) samples high indel rate within active enhancers. Enhancers indels show evidence...
In this work, we developed processes to biofunctionalize magnetic nanoparticles dispersed in phosphate buffer saline solution. For future clinical utility, were biofunctionalized with anti-vascular cell adhesion molecule-1 (VCAM-1) label the VCAM-1 molecule, which served as an indicator for lesions prone vulnerable atherosclerotic plaque formation. The used magnetically label, vitro, cells expressing VCAM-1, well locate aortic of hypercholesterolemic rabbits aid resonance imaging. addition...
Abstract The electrophoretic mobility‐shift assay (EMSA) is one of the most popular tools in molecular biology for measuring DNA–protein interactions. EMSA, as standardly practiced today, works well complexes with association binding constants K a >10 9 M −1 under normal conditions salt and pH. Many are not stable enough so that they dissociate while moving through gel matrix giving smeared bands difficult to quantitate reliably. In this work we demonstrate addition osmolyte triethylene...
Protein adsorption is known to direct biological response biomaterials and important in determining cellular tissue scaffolds. In this study we investigated the effect of duration protein 3D polymer scaffolds on cell attachment proliferation. macro-porous were pre-aged serum-containing culture medium for 5 min, 1 d or 7 prior seeding osteoblasts. The total amount adsorbed was found increase with pre-ageing time. Cell proliferation measured 14 d, respectively, after seeding. Osteoblast...
SUMMARY All mammalian cells sense and respond to insufficient oxygen, or hypoxia, through the activity of hypoxia-inducible factors (HIFs), an evolutionarily conserved family transcriptional regulators that promote oxygen-independent energy metabolism angiogenesis. While HIF activation is transiently protective for all cells, prolonged drives distinct pathological responses in different tissues. How achieves this pleiotropic effect largely unknown. Here, we demonstrate non-canonical targets...
Abstract Metastasis results from a complex set of traits acquired by tumor cells, distinct those necessary for tumorigenesis. Here, we investigate the contribution enhancer elements to metastatic phenotype osteosarcoma. Through epigenomic profiling, identify substantial differences in activity between primary and tumors human patients as well nearisogenic pairs high low lung-metastatic osteosarcoma cells. We term these regions Metastatic Variant Enhancer Loci (Met-VELs). demonstrate that...
Transposon insertion sequencing (TIS) is a highly effective method used with bacteria to identify genes important for growth in any condition of interest. Previously, we adapted this essential the yeast Schizosaccharomyces pombe. Here, describe modifications necessary formation centromeric heterochromatin. For complete details on use and execution protocol, please refer Lee et al. (2020).
Abstract Metastasis results from a complex set of traits acquired by tumor cells, distinct those necessary for tumorigenesis. Here, we investigate the contribution enhancer elements to metastatic phenotype osteosarcoma. Through epigenomic profiling, identify substantial differences in signature enhancer-histone marks between near-isogenic pairs high and low lung-metastatic osteosarcoma cells. We term these regions Metastatic Variant Enhancer Loci (Met-VELs). Met-VELs drive coordinated waves...
Abstract Transposable elements become increasingly active in both cancerous and aging cells, driven by loss of DNA methylation as cells divide. Here we leverage the epigenomes colon cancers with matched adjacent tissue, addition to non-cancerous normals cell line models, assess role transposable drivers or passengers cancer development. Using baseline activity from normal show that youngest subfamilies LINE1 (L1) family exhibit a degree recurrence across patients goes beyond what is expected...
Abstract Background Competence in reaching the correct diagnosis from analysis of clinical pathology specimens requires exposure to a large volume and breadth cases. Images textbooks are critical resources that supplement actual cases with well curated information. However, learning has several setbacks. individual limited number often do not adequately capture variation disease entity. Textbooks also usually provide platform for learners assess their diagnostic abilities. This burdens...
Abstract Commonly-mutated genes have been found for many cancers, but less is known about mutations in cis -regulatory elements. We leverage gains tumor-specific enhancer activity, coupled with allele-biased mutation detection from H3K27ac ChIP-seq data, to pinpoint potential enhancer-activating colorectal cancer (CRC). Analysis of a genetically-diverse cohort CRC specimens revealed that microsatellite instable (MSI) samples high indel rate within active enhancers. Enhancers indels show...