A5050108806- COVID-19 Clinical Research Studies
- Single-cell and spatial transcriptomics
- Food Allergy and Anaphylaxis Research
- Allergic Rhinitis and Sensitization
- Immune Cell Function and Interaction
- Long-Term Effects of COVID-19
- Immune cells in cancer
- T-cell and B-cell Immunology
- Asthma and respiratory diseases
- Immune responses and vaccinations
- Cell Image Analysis Techniques
- IL-33, ST2, and ILC Pathways
- Neutrophil, Myeloperoxidase and Oxidative Mechanisms
- COVID-19 and Mental Health
- CAR-T cell therapy research
- Immune Response and Inflammation
- Chronic Obstructive Pulmonary Disease (COPD) Research
- Contact Dermatitis and Allergies
- HIV/AIDS Research and Interventions
- Statistical Methods in Clinical Trials
- Respiratory and Cough-Related Research
- Neonatal Respiratory Health Research
- Rheumatoid Arthritis Research and Therapies
- Gastrointestinal motility and disorders
- HIV-related health complications and treatments
Stanford University
2020-2024
Allen Institute for Immunology
2022-2024
Stanford Health Care
2022
Tulane University
2017-2021
Parker Hannifin (United States)
2021
Tula University
2017
BACKGROUND. There has been a striking generational increase in the prevalence of food allergies. We have proposed that this can be explained, part, by alterations commensal microbiome.
It is unclear whether asthma and its allergic phenotype are risk factors for hospitalization or severe disease from SARS-CoV-2. All patients over 28 days old testing positive SARS-CoV-2 between March 1 September 30, 2020, were retrospectively identified characterized through electronic analysis at Stanford. A sub-cohort was followed prospectively to evaluate long-term COVID-19 symptoms. 168,190 underwent testing, 6,976 (4.15%) tested positive. In a multivariate analysis, not an independent...
Abstract Age-associated changes in the T cell compartment are well described. However, limitations of current single-modal or bimodal single-cell assays, including flow cytometry, RNA-seq (RNA sequencing) and CITE-seq (cellular indexing transcriptomes epitopes by sequencing), have restricted our ability to deconvolve more complex cellular molecular changes. Here, we profile >300,000 single cells from healthy children (aged 11–13 years) older adults 55–65 using trimodal assay TEA-seq...
Abstract Motivation For immune system monitoring in large-scale studies at the single-cell resolution using CyTOF, (semi-)automated computational methods are applied for annotating live cells of mixed cell types. Here, we show that pool can be highly enriched with undefined heterogeneous cells, i.e. ‘ungated’ and current semi-automated approaches ignore their modeling resulting misclassified annotations. Result We introduce ‘CyAnno’, a novel approach deconvoluting unlabeled cytometry dataset...
Abstract Background The impact of exposure to air pollutants, such as fine particulate matter (PM), on the immune system and its consequences pediatric asthma, are not well understood. We investigated whether ambient levels PM with aerodynamic diameter ≤2.5 microns (PM 2.5 ) associated alterations in circulating monocytes children or without asthma. Methods Monocyte phenotyping was performed by cytometry time‐of‐flight (CyTOF). Cytokines were measured using cytometric bead array Luminex...
Food allergies are a leading cause of anaphylaxis, and cellular mechanisms involving antigen presentation likely play key roles in their pathogenesis. However, little is known about the response specific antigen-presenting cell (APC) subsets to food allergens setting allergies. Here, we show that peanut-allergic humans, peanut allergen drives differentiation CD209+ monocyte-derived dendritic cells (DCs) CD23+ (FcєRII) myeloid through action allergen-specific CD4+ T cells. DCs act...
Introduction Innate lymphoid cells (ILCs) are enriched at mucosal surfaces where they respond rapidly to environmental stimuli and contribute both tissue inflammation healing. Methods To gain insight into the role of ILCs in pathology recovery from COVID-19 infection, we employed a multi-omics approach consisting Abseq targeted mRNA sequencing respectively probe surface marker expression, transcriptional profile heterogeneity peripheral blood patients with compared healthy controls. Results...
Abstract Neutrophils, basophils, and monocytes are continuously produced in bone marrow via myelopoiesis, circulate blood, eventually removed from circulation to maintain homeostasis. To quantitate the kinetics of myeloid cell movement during homeostasis, we applied 5-bromo-2′-deoxyuridine pulse labeling healthy rhesus macaques (Macaca mulatta) followed by hematology flow cytometry analyses. Results were a mathematical model, blood circulating half-life daily production, respectively, each...
Abstract Some autoimmune diseases, including rheumatoid arthritis (RA), are preceded by a critical subclinical phase of disease activity. Proactive clinical management is hampered lack biological understanding this ‘at-risk’ state and the changes underlying development. In cross-sectional longitudinal multi-omics study peripheral immunity in autoantibody-positive at-risk for RA period, we identified systemic inflammation, proinflammatory-skewed B cells, expanded Tfh17-like epigenetic bias...
Clinical trials, conducted efficiently and with the utmost integrity, are a key component in identifying effective vaccines, therapies, other interventions urgently needed to solve COVID-19 crisis. Yet launching implementing trials rigor necessary produce convincing results is complicated time-consuming process. Balancing efficiency involves relying on designs that employ flexible features respond fast-changing landscape, measuring valid endpoints result translational actions disseminating...
Objectives: CD4 + T-cell decline and increasing virus levels are considered hallmarks of HIV/AIDS pathogenesis but we previously demonstrated in rhesus macaques that tissue macrophage destruction by simian immunodeficiency (SIV) infection associated with increased monocyte turnover also appear to impact pathogenesis. It remains unclear, however, which factors best predict onset terminal disease progression survival time. The objective this study, therefore, was directly compare these...
Abstract Aging is characterized by a loss of bone marrow hematopoietic tissue, systemic chronic inflammation, and higher susceptibility to infectious noninfectious diseases. We previously reported the tightly regulated kinetics massive daily production neutrophils during homeostasis in adult rhesus macaques aged 3 19 yr (equivalent approximately 10 70 age humans). In current study, we observed an earlier release recently dividing from greater in-group variability neutrophil based on vivo...
Background: It is unclear if asthma and its allergic phenotype are risk factors for hospitalization or severe disease from SARS-CoV-2. Methods: All patients testing positive SARS-CoV-2 between March 1 September 30, 2020, were retrospectively identified characterized through electronic analysis at Stanford. A sub-cohort was followed prospectively to evaluate long-term COVID-19 symptoms. Results: 168,190 underwent testing, 6,976 (4·15%) tested positive. In a multivariate analysis, not an...
Seeds are the fundamental source of dandelion life on earth, and their germination process is first step towards plant growth. The seed involves activating a complex series biochemical reactions that transform into an active viable organism. crucial for producing plants flowers, dandelions require specific environmental conditions successful In this article, we will explore growing seeds, spread during growth, impact factors invasive species, including dandelions. Problem 1, answer question...
Abstract: The naive T cell compartment undergoes multiple changes across age that associate with altered susceptibility to infection and autoimmunity. In addition the acquisition of naive-like memory subsets, mouse studies describe substantial molecular reprogramming in adults compared adolescents. However, these alterations are not well delineated human aging. Using a new trimodal single technology (TEA-seq), we discovered composition transcriptional epigenetic programming children (11-13...
Abstract For immune system monitoring in large-scale studies at the single-cell resolution using CyTOF, (semi-)automated computational methods are applied for annotating live cells of mixed cell types. Here, we show that pool can be highly enriched with undefined heterogeneous cells, i.e. ‘ungated’ and current approaches ignore their modeling resulting misclassified annotations. Therefore, introduce ‘CyAnno’, a novel semi-automated approach deconvoluting unlabeled cytometry dataset based on...
Background: It is unclear if asthma and its allergic phenotype are risk factors for hospitalization or severe disease from SARS-CoV-2.Methods: All patients testing positive SARS-CoV-2 between March 1 September 30, 2020, were retrospectively identified characterized through electronic analysis at Stanford. A sub-cohort was followed prospectively to evaluate long-term COVID-19 symptoms.Findings: 168,190 underwent testing, 6,976 (4·15%) tested positive. In a multivariate analysis, not an...
Abstract Most single cell analyses of human T heterogeneity use a modality (i.e., RNA or ATAC protein), with limited ability to deconvolute complex cellular and molecular alterations that can occur during aging disease. Here, we new trimodal technology (TEA-seq) elucidate the interplay between surface proteome, transcriptome, epigenome in more than 300,000 cells from healthy children (11–13 yrs) older adults (55–65 yrs). We uncover age universally drives reprogramming across all subsets...
Abstract Myeloid cells are continuously produced via bone marrow hematopoiesis and then cleared from the circulation to maintain homeostasis. To better understand kinetics of such cell movement, we applied in vivo BrdU pulse-chase labeling flow cytometry analysis follow division during homeostasis each subset myeloid peripheral blood rhesus macaques. Results were a mathematical model estimate half-life daily production as follows; neutrophils (1.63±0.16 days, 1.42×109cells/L/day), basophils...