A5044545913- Hearing, Cochlea, Tinnitus, Genetics
- Hearing Loss and Rehabilitation
- Computational Drug Discovery Methods
- Protein Structure and Dynamics
- Genetic Associations and Epidemiology
- Gene expression and cancer classification
- Noise Effects and Management
- Genetic Mapping and Diversity in Plants and Animals
- Biochemical and Molecular Research
- Evolutionary Algorithms and Applications
- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Trypanosoma species research and implications
- Machine Learning in Bioinformatics
- Advanced Multi-Objective Optimization Algorithms
- Cytomegalovirus and herpesvirus research
- Genetic and phenotypic traits in livestock
- Soybean genetics and cultivation
- Insect and Pesticide Research
- Animal Ecology and Behavior Studies
- Enzyme Structure and Function
- Metaheuristic Optimization Algorithms Research
- Gut microbiota and health
- RNA and protein synthesis mechanisms
- Gene Regulatory Network Analysis
University of Florida
2014-2025
Scripps Institution of Oceanography
2021-2022
Scripps (United States)
2022
Scripps Research Institute
2019-2022
Northern Arizona University
2017-2019
Pontifícia Universidade Católica do Rio Grande do Sul
2008-2017
Departamento de Ciência e Tecnologia
2016
Universidade Federal de São Carlos
2002
The incidence of the autoimmune disease, type 1 diabetes (T1D), has increased dramatically over last half century in many developed countries and is particularly high Finland other Nordic countries. Along with genetic predisposition, environmental factors are thought to play a critical role this increase. As diseases, gut microbiome potential controlling progression T1D children risk, but we know little about how develops risk for T1D. In study, early development microbiomes 76 at was...
The two-component signal transduction system BarA-UvrY of Escherichia coli and its orthologs globally regulate metabolism, motility, biofilm formation, stress resistance, virulence pathogens quorum sensing by activating the transcription genes for regulatory sRNAs, e.g. CsrB CsrC in E. coli. These sRNAs act sequestering RNA binding protein CsrA (RsmA) away from lower affinity mRNA targets. In this study, we used ChIP-exo to identify, at single nucleotide resolution, genomic sites UvrY (SirA)...
Over the last 25 years, biology has entered genomic era and is becoming a science of 'big data'. Most interpretations analyses rely on accurate functional annotations proteins encoded by more than 500 000 genomes sequenced to date. By different estimates, only half predicted carry an annotation, this percentage varies drastically between organismal lineages. Such large gap in knowledge hampers all aspects biological enterprise and, thereby, standing way reaching its full potential. A...
We developed a smartphone application, MyGeneRank, to conduct prospective observational cohort study (NCT03277365) involving the automated generation, communication, and electronic capture of response polygenic risk score (PRS) for coronary artery disease (CAD). Adults with an existing 23andMe genetic profiling self-referred study. evaluated self-reported actions taken in personal CAD PRS information, special interest initiation lipid-lowering therapy. 19% (721/3,800) participants provided...
Polygenic risk scores (PRSs) are a summarization of an individual's genetic for disease or trait. These being generated in research and commercial settings to study how they may be used guide healthcare decisions. PRSs should updated as knowledgebases improve; however, no guidelines exist their generation updating.
Despite advances in sequencing technologies, genome-scale datasets often contain missing bases and genomic segments, hindering downstream analyses. Genotype imputation addresses this issue has been a cornerstone pre-processing step genetic studies. Although various methods have widely adopted for genotype imputation, it remains challenging to impute certain regions large structural variants. Here, we present transformer-based framework, named STICI, accurate imputation. STICI models...
The global food production sector is under immense pressure due to rapid population growth and climate change, demanding innovative solutions for security sustainability. This review explores advancements in agriculture technology, from urban farming (e.g., vertical farming, aquaponics, hydroponics) regenerative agroforestry practices that enhance soil health biodiversity. We also examine extreme environments, including desert space agriculture, as well advances biotechnology, synthetic...
The structure of the glycosomal glyceraldehyde‐3‐phosphate dehydrogenase (gGAPDH) from Trypanosoma cruzi complexed with chalepin, a natural product Pilocarpus spicatus , has been determined by X‐ray crystallography to 1.95 Å resolution. is in apo form without cofactors subunits tetrameric gGAPDH asymmetric unit. Unequivocal density corresponding inhibitor was clearly identified one monomer. final refined model complex shows extensive conformational changes when compared native structure....
Here Tn5 random transposon mutagenesis was used to identify the essential elements for culturing Liberibacter crescens BT-1 that can serve as antimicrobial targets closely related pathogens of citrus, Candidatus asiaticus (Las) and tomato potato, solanacearum (Lso). In order gain insight on virulence, metabolism, culturability within genus Liberibacter, a mini-Tn5 derivative system consisting gene specifying resistance kanamycin, flanked by 19-base-pair terminal repeat sequence Tn5,...
Tinnitus, a phantom perception of sound in the absence any external source, is prevalent health condition often accompanied by psychiatric comorbidities. Recent genome-wide association studies (GWAS) highlighted polygenic nature tinnitus susceptibility. A shared genetic component between and conditions remains elusive. Here we present GWAS using UK Biobank to investigate processes linked tinnitus-related distress, followed gene-set enrichment analyses. The sample comprised 132,438...
In systems biology, qualitative data are often generated, but rarely used to parameterize models. We demonstrate an approach in which and quantitative can be combined for parameter identification. this approach, converted into inequality constraints imposed on the outputs of model. These inequalities along with points construct a single scalar objective function that accounts both datasets. To illustrate we estimate parameters simple model describing Raf activation. then apply technique more...
Eukaryote-bacteria symbioses are common in nature and several have been extensively studied. However, very little is known about the role of epigenetics differentiation a bacterium from free-living to symbiotic state. Here first genome-wide analysis DNA methylation changes between these states described using model symbiosis soybean (Glycine max (L.) Merr.) its root nodule-forming, nitrogen-fixing symbiont, Bradyrhizobium diazoefficiens. Resequencing genome B. diazoefficiens both Pacific...
Bromeliads are a diverse group of plants that includes many species whose individuals capable retaining water, forming habitats called phytotelmata. These harbor diversity organisms including prokaryotes, unicellular eukaryotes, metazoans, and fungi. Among single-celled eukaryotic organisms, ciliates generally the most abundant. In present study, we used Illumina DNA sequencing to survey communities, especially ciliates, inhabiting tanks bromeliads Aechmea gamosepala Vriesea platynema in...
ABSTRACT Interactions between proteins and other molecules play essential roles in all biological processes. Although it is widely held that a protein's ligand specificity determined primarily by its three‐dimensional structure, the general principles which structure determines binding remain poorly understood. Here we use statistical analyses of large number protein−ligand complexes with associated binding‐affinity measurements to quantitatively characterize how combinations atomic...
Genotype imputation is a foundational tool for population genetics. Standard statistical approaches rely on the co-location of large whole-genome sequencing-based reference panels, powerful computing environments, and potentially sensitive genetic study data. This results in computational resource privacy-risk barriers to access cutting-edge techniques. Moreover, accuracy current known degrade regions low complex linkage disequilibrium. Artificial neural network-based may overcome these...