A5062079290- Bioinformatics and Genomic Networks
- Hedgehog Signaling Pathway Studies
- Gene expression and cancer classification
- Genomics and Phylogenetic Studies
- Glioma Diagnosis and Treatment
- Cleft Lip and Palate Research
- Oral microbiology and periodontitis research
- Craniofacial Disorders and Treatments
- Epigenetics and DNA Methylation
- Biomedical Text Mining and Ontologies
- Horticultural and Viticultural Research
- Ubiquitin and proteasome pathways
- Machine Learning in Bioinformatics
- Oral Health Pathology and Treatment
- Neurobiology and Insect Physiology Research
- Gut microbiota and health
- Mycobacterium research and diagnosis
- Mitochondrial Function and Pathology
- RNA modifications and cancer
- Tuberculosis Research and Epidemiology
- RNA Research and Splicing
- Salivary Gland Disorders and Functions
- ATP Synthase and ATPases Research
- interferon and immune responses
- Plant and Fungal Interactions Research
University of Iowa
2018-2025
Nova Southeastern University
2021
American Dental Education Association
2021
John Wiley & Sons (United States)
2021
Anatolia College
2021
American College
2021
Engineering Associates (United States)
2021
University of South Dakota
2015-2020
University of Notre Dame
2010-2019
Center for Global Health
2014
One of the hallmarks Gram-negative bacterium Pseudomonas aeruginosa is its ability to thrive in diverse environments that includes humans with a variety debilitating diseases or immune deficiencies. Here we report complete sequence and comparative analysis genomes two representative P. strains isolated from cystic fibrosis (CF) patients whose genetic disorder predisposes them infections by this pathogen. The comparison CF those other presents picture mosaic genome, consisting conserved core...
Background Macrophages infected with Mycobacterium tuberculosis (M.tb) are known to be refractory IFN-γ stimulation. Previous studies have shown that M.tb express components such as the 19-kDa lipoprotein and peptidoglycan can bind macrophage receptors including Toll-like receptor 2 resulting in loss IFN-γresponsiveness. However, it is unclear whether this effect limited macrophages. We previously M.tb-infected macrophages release exosomes which 30–100 nm membrane bound vesicles of endosomal...
Gene expression regulation is one of the fundamental mechanisms phenotypic plasticity and expected to respond selection in conditions favoring response. The observation that many organisms increase their stress tolerance after acclimation moderate levels an example which has been long hypothesized be based on adaptive changes gene expression. We report genome-wide patterns two heat-tolerant heat-sensitive parthenogenetic clones zooplankton crustacean Daphnia pulex exposed for three...
Emerging evidence suggests comprehensive immune profiling represents a highly promising, yet insufficiently tapped approach to identify potentially prognostic signatures for periodontitis. In this report, we agnostically identified periodontitis-associated inflammatory expression network with multiple biomarkers within gingival crevicular fluid samples from study participants by applying principal component analysis. We an IL-17-dominated trait that is associated periodontal disease and...
Mutations in the 81-bp rifampin resistance determining region (RRDR) and mutation V176F locating at beginning of ropB gene were analyzed by DNA sequencing 86 Mycobacterium tuberculosis clinical isolates (72 resistant 14 sensitive) from different parts China. Sixty-five mutations 22 distinct kinds, 21 point mutations, 1 insertion found 65 72 isolates. The most common codons 531 (41%), 526 (40%), 516 (4%). not seven (10%) Six new alleles within RRDR, along with five novel outside are reported....
Failure to efficiently clear apoptotic cells is linked defects in development and the onset of autoimmunity. Complement component C1q required for efficient engulfment mice humans; however, molecular mechanisms leading C1q-dependent are not fully understood. In this study, we used primary mouse macrophages identify characterize a novel mechanism macrophage-mediated cells. We found that macrophage activation with resulted cycloheximide-sensitive enhanced engulfment, indicating requirement de...
// Fang 1 , Ashley VanCleave Ralph Helmuth 1, 2 Haydee Torres 3 Kirby Rickel 4 Hannah Wollenzien 5 Hongli Sun 6 Erliang Zeng 7 Jing Zhao 8, 9 and Jianning Tao 3, 5, 10 Cancer Biology Immunotherapies Group, Sanford Research, Sioux Falls, SD, USA BRIN Scholar from Dakota Wesleyan University, Department of Chemistry Biochemistry, South State Brookings, Biomedical Engineering, University Dakota, Basic Sciences, Vermillion, Oral Maxillofacial Surgery, Iowa, Iowa City, IA, Departments Preventive &...
Abstract The majority (85%) of nonsyndromic cleft lip with or without palate (nsCL/P) cases occur sporadically, suggesting a role for de novo mutations (DNMs) in the etiology nsCL/P. To identify high impact protein-altering DNMs that contribute to risk nsCL/P, we conducted whole-genome sequencing (WGS) analyses 130 African case-parent trios (affected probands and unaffected parents). We identified 162 confidence some which are based on available evidence, These include novel...
Summary Epicuticular waxes provide a hydrophobic barrier that protects land plants from environmental stresses. To elucidate the molecular functions of maize glossy mutants reduce accumulation epicuticular waxes, eight non‐allelic were subjected to transcriptomic comparisons with their respective wild‐type siblings. Transcriptomic identified 2279 differentially expressed ( DE ) genes. Other genes tended be down‐regulated in mutants; by contrast stress‐responsive pathways induced mutants....
Nonsyndromic orofacial clefts (OFCs) etiology involves multiple genetic and environmental factors with over 60 identified risk loci; however, they account for only a minority of the estimated risk. Epigenetic such as differential DNA methylation (DNAm) are also associated OFCs can alter different cleft types modify penetrance. DNAm is covalent addition methyl (CH3) group to nucleotide cytosine that lead changes in expression targeted gene. be affected by influences variation via quantitative...
// Daniel W. Vermeer 1 , Joseph D. Coppock Erliang Zeng 2, 3 Kimberly M. Lee William C. Spanos 1, 4 Michael Onken 5 Ravindra Uppaluri 6 John H. Paola Cancer Biology Research Center, Sanford Research, Sioux Falls, South Dakota, USA 2 Department of Biology, University Vermillion, Computer Science, Otolaryngology/Head and Neck Surgery, Health, Cell Physiology, Washington School Medicine, St. Louis, Missouri, Otolaryngology, Correspondence to: Vermeer, e-mail: Paola.Vermeer@SanfordHealth.org...
Abstract Medulloblastoma arising from the cerebellum is most common pediatric brain malignancy, with leptomeningeal metastases often present at diagnosis and recurrence associated poor clinical outcome. In this study, we used mouse medulloblastoma models to explore relationship of tumor pathophysiology dysregulated expression NOTCH pathway transcription factor ATOH1, which in aggressive subtypes driven by aberrant Sonic Hedgehog/Patched (SHH/PTCH) signaling. experiments conditional ATOH1...
Abstract Leishmania major–infected human dendritic cells (DCs) exhibit a marked induction of IL-12, ultimately promoting robust Th1-mediated response associated with parasite killing and protective immunity. The host cell transcription machinery the specific IL-12 observed during L. major infection remains to be thoroughly elucidated. In this study, we used Affymetrix GeneChip (Affymetrix) globally assess genes pathways early in myeloid-derived DCs. Our data revealed 728 were significantly...
The failure to clear apoptotic cells is linked defects in development and autoimmunity. Complement component C1q required for efficient engulfment of (efferocytosis), deficiency leads the lupus. We recently identified a novel molecular mechanism C1q-dependent efferocytosis murine macrophages. elicited expression Mer tyrosine kinase (Mer), receptor that regulates prevention To characterize signal transduction mechanism, pathway analysis transcriptome from C1q-activated macrophages was...
Abstract Local adaptation of populations could preclude or slow range expansions in response to changing climate, particularly when dispersal is limited. To investigate the differential responses climatic conditions, we exposed poleward peripheral and central two L epidoptera reciprocal, common‐garden conditions compared their whole‐transcriptome expression. We found evidence simple population differentiation both species, species with previously identified structure phenotypic local...
Marine and freshwater zooplankton exhibit daily rhythmic patterns of behavior physiology which may be regulated directly by the light:dark (LD) cycle and/or a molecular circadian clock. One best-studied taxa, crustacean Daphnia, has 24 h diel vertical migration (DVM) whereby organism travels up down through water column daily. DVM plays critical role in resource tracking behavioral avoidance predators damaging ultraviolet radiation. However, there is little information at transcriptional...
Abstract Regulons are the basic units of response system in a bacterial cell and each consists set transcriptionally co-regulated operons. Regulon elucidation is basis for studying global transcriptional regulation network. In this study, we designed novel co-regulation score between pair operons based on accurate operon identification cis regulatory motif analyses, which can capture their relationship much better than other scores. Taking full advantage discovery, developed new...
SS is an autoimmune disease most commonly diagnosed in adults but can occur children. Our objective was to assess the presence of chemokines, cytokines and biomarkers (CCBMs) saliva from these children that were associated with lymphocyte mononuclear cell functions.Saliva collected 11 prior age 18 years 16 normal healthy A total 105 CCBMs detected multiplex microparticle-based immunoassays. ANOVA t test (0.05 level) used detect differences. Ingenuity Pathway Analysis (IPA) whether elevated...
The intersection between the human oral microbiome and health is an emerging area of study which has gained momentum over last decade. This motivated a search for associations cancer, in hopes identifying possible biomarkers that facilitate earlier diagnosis improved prognosis patients with disease. present examined relationship cavity squamous cell carcinoma (OSCC). We searched literature case-control studies focused on OSCC. aggregated three types data from these studies: bacteriome at...
To assess the prevalence of degenerative bone changes in temporomandibular joint (TMJ) older adults using cone-beam computed tomography (CBCT), and to verify possible associations between these findings patient health history.CBCT scans comprising both TMJs were acquired for 137 patients aged 65+, regardless TMD status. Images assessed by two oral radiologists evaluated presence flattening, erosion, sclerosis, subchondral cysts, osteophytes TMJ bony components, self-reported systemic...