A5100779613- Bioinformatics and Genomic Networks
- Computational Drug Discovery Methods
- Cell Image Analysis Techniques
- Biomedical Text Mining and Ontologies
- Genetics, Bioinformatics, and Biomedical Research
- Genomics and Phylogenetic Studies
- Semantic Web and Ontologies
- RNA Research and Splicing
- Diverse Approaches in Healthcare and Education Studies
- Psychosocial Factors Impacting Youth
- Chronic Obstructive Pulmonary Disease (COPD) Research
- Functional Brain Connectivity Studies
- Innovative Human-Technology Interaction
- Genetic Associations and Epidemiology
- Anthropology: Ethics, History, Culture
- Transcranial Magnetic Stimulation Studies
- Microtubule and mitosis dynamics
- Educational Systems and Policies
- Carbohydrate Chemistry and Synthesis
- Gene expression and cancer classification
- RNA modifications and cancer
- Airway Management and Intubation Techniques
- VLSI and FPGA Design Techniques
- Information Systems Theories and Implementation
- Protein Structure and Dynamics
Samsung (South Korea)
2024
University of California, San Diego
2019-2023
Korea University of Science and Technology
2023
Korea Polar Research Institute
2023
Pancreatic Cancer Action Network
2021-2023
Korea Research Institute of Bioscience and Biotechnology
2021
Stony Brook School
2020
Stony Brook University
2020
Tufts University
2013-2017
Seoul National University Bundang Hospital
2015
Cancers have been associated with a diverse array of genomic alterations. To help mechanistically understand such alterations in breast-invasive carcinoma, we applied affinity purification–mass spectrometry to delineate comprehensive biophysical interaction networks for 40 frequently altered breast cancer (BC) proteins, and without relevant mutations, across three human cell lines. These identify cancer-specific protein-protein interactions (PPIs), interconnected enriched common rare that...
In protein-protein interaction (PPI) networks, functional similarity is often inferred based on the function of directly interacting proteins, or more generally, some notion network proximity among proteins in a local neighborhood. Prior methods typically measure as shortest-path distance network, but this has only limited ability to capture fine-grained neighborhood distinctions, because most are close each other, and there many ties proximity. We introduce diffusion state (DSD), new metric...
Abstract Motivation: It has long been hypothesized that incorporating models of network noise as well edge directions and known pathway information into the representation protein–protein interaction (PPI) networks might improve their utility for functional inference. However, a simple way to do this not obvious. We find diffusion state distance (DSD), our recent diffusion-based metric measuring dissimilarity in PPI networks, natural extensions incorporate confidence, can even express...
A major goal of cancer research is to understand how mutations distributed across diverse genes affect common cellular systems, including multiprotein complexes and assemblies. Two challenges—how comprehensively map such systems identify which are under mutational selection—have hindered this understanding. Accordingly, we created a comprehensive protein integrating both new published multi-omic interaction data at multiple scales analysis. We then developed unified statistical model that...
We outline a framework for elucidating tumor genetic complexity through multidimensional protein-protein interaction maps and apply it to enhancing our understanding of head neck squamous cell carcinoma. This network uncovers 771 interactions from cancer noncancerous states, including WT mutant protein isoforms. Prioritization cancer-enriched reveals previously unidentified association the fibroblast growth factor receptor tyrosine kinase 3 with Daple, guanine-nucleotide exchange factor,...
The DNA damage response (DDR) ensures error-free replication and transcription is disrupted in numerous diseases. An ongoing challenge to determine the proteins orchestrating DDR their organization into complexes, including constitutive interactions those responding genomic insult. Here, we use multi-conditional network analysis systematically map assemblies at multiple scales. Affinity purifications of 21 proteins, with/without genotoxin exposure, are combined with multi-omics data reveal a...
The technology biography combines and adapts a number of qualitative data collection techniques to focus on past, present possible future domestic technologies. Processes, concerns problems life are identified in order develop illustrative product suggestions inspire or provoke designers.
Disease taxonomies have been designed for many applications, but they tend not to fully incorporate the growing amount of molecular-level knowledge disease processes, inhibiting research efforts. Understanding degree which we can infer relationships from molecular data alone may yield insights into how ultimately construct more modern that integrate both physiological and information. We introduce a new technique call Parent Promotion hierarchical between terms using disease-gene data....
In protein-protein interaction (PPI) networks, functional similarity is often inferred based on the function of directly interacting proteins, or more generally, some notion network proximity among proteins in a local neighborhood.Prior methods typically measure as shortest-path distance network, but this has only limited ability to capture fine-grained neighborhood distinctions, because most are close each other, and there many ties proximity.We introduce diffusion state (DSD), new metric...
Abstract Identification of functional pathways mediating molecular responses may lead to better understanding disease processes and suggest new therapeutic approaches. We introduce a method detect such functions using topological properties protein-protein interaction networks. define the concept pathway centrality, measure communication between genes differentially expressed genes. Using we identify in three pulmonary diseases (asthma; bronchopulmonary dysplasia (BPD); chronic obstructive...
Identifying molecular connections between developmental processes and disease can lead to new hypotheses about health risks at all stages of life. Here we introduce a approach identifying significant gene sets genes, apply it several related human development. To overcome the limits incomplete imperfect information linking genes disease, pool within subtrees in MeSH taxonomy, demonstrate that such pooling improves power accuracy our approach. Significance is assessed through permutation. We...
ABSTRACT The eukaryotic cell is a multi-scale structure with modular organization across at least four orders of magnitude 1,2 . Two central approaches for mapping this – protein fluorescent imaging and biophysical association each generate extensive datasets but distinct qualities resolutions that are typically treated separately 3,4 Here, we integrate immunofluorescent images in the Human Protein Atlas 5 ongoing affinity purification experiments from BioPlex resource 6 to create unified...
Excessive dynamic airway collapse (EDAC) is a disease entity of excessive reduction the central diameter during exhalation, without cartilage collapse. An 80-year-old female presented with generalized edema and dyspnea at our hospital. The patient was in state acute decompensated heart failure due to pneumonia respiratory failure. We accordingly managed renal replacement therapy, mechanical ventilation antibiotics. Bronchoscopy confirmed diagnosis EDAC. scheduled extubation after improvement...
The complete mitochondrial genome of
The purpose of this study was to explore the research trends parenting stress in Korea using a sematic network analysis. We analyzed titles 995 journal articles that included "parenting stress" and were published Korean language between 1990 2017. found "mother," "parenting," "effect" key words appeared most frequently titles. These had high degree centrality, eigenvector betweenness which shows has focused on mothers examined factors associated with stress. Our CONCOR analysis identified...
Abstract Many potential cancer therapies fail during clinical trials, in part due to difficulty predicting how different cancers will respond a given drug. Here we develop DrugCell, “visible” neural network (VNN) that predicts anti-cancer drug responses by modeling the hierarchical organization of human cell. Using 509,294 examples cell treatments, trained novel branched (NN). The first branch is VNN which represents structurally mirroring cellular subsystems with collections neurons...
The technology biography combines and adapts a number of qualitative data collection techniques to focus on past, present possible future domestic technologies. Processes, concerns problems life are identified in order develop illustrative product suggestions inspire or provoke designers.
Identification of functional pathways mediating molecular responses may lead to better understanding disease processes and suggest new therapeutic approaches. We introduce a method detect such functions using topological properties protein-protein interaction networks. the concept pathway centrality, measure communication between genes differentially expressed genes. find for three pulmonary diseases (asthma; bronchopulmonary dysplasia (BPD); chronic obstructive (COPD)) centrality. Mediating...
Disease taxonomies have been designed for many applications, but they tend not to fully incorporate the growing amount of molecular-level knowledge disease processes, inhibiting research efforts. Understanding degree which we can infer relationships from molecular data alone may yield insights into how ultimately construct more modern that integrate both physiological and information. We introduce a new technique call Parent Promotion hierarchical between terms using disease-gene data....