A5012026856- Acute Myeloid Leukemia Research
- Epigenetics and DNA Methylation
- Acute Lymphoblastic Leukemia research
- Immunotherapy and Immune Responses
- Nanoplatforms for cancer theranostics
- DNA Repair Mechanisms
- CAR-T cell therapy research
- RNA modifications and cancer
- Cancer-related gene regulation
- Cancer Genomics and Diagnostics
- Genomics and Phylogenetic Studies
- Genomics and Chromatin Dynamics
- Histone Deacetylase Inhibitors Research
- RNA Research and Splicing
- Lymphoma Diagnosis and Treatment
- Semantic Web and Ontologies
- Protein Degradation and Inhibitors
- Cancer Immunotherapy and Biomarkers
- Bioinformatics and Genomic Networks
- Data Mining Algorithms and Applications
- Bayesian Modeling and Causal Inference
- RNA and protein synthesis mechanisms
- Gene expression and cancer classification
- Multiple Myeloma Research and Treatments
- Biomedical Text Mining and Ontologies
University of Florida
2014-2024
Human Technopole
2024
Florida College
2007-2024
University of Florida Health
2007-2023
UF Health Cancer Center
2019-2023
University of Florida Health Science Center
2023
University of KwaZulu-Natal
2023
Case Western Reserve University
2023
University School
2023
Cornell University
2023
MicroRNAs (miRNAs) are small noncoding RNAs that posttranscriptionally regulate gene expression by binding to 3'-untranslated regions (3'UTRs) of target mRNAs. Kaposi's sarcoma-associated herpesvirus (KSHV), a virus linked malignancies including primary effusion lymphoma (PEL), encodes 12 miRNA genes, but only few regulatory targets known. We found KSHV-miR-K12-11 shares 100% seed sequence homology with hsa-miR-155, an frequently be up-regulated in lymphomas and critically important for...
MicroRNAs (miRNAs) are 19 to 23 nucleotide-long RNAs that post-transcriptionally regulate gene expression. Human cells express several hundred miRNAs which important biological pathways such as development, proliferation, and apoptosis. Recently, 12 miRNA genes have been identified within the genome of Kaposi sarcoma-associated herpesvirus; however, their functions still unknown. To identify host cellular may be targeted by these novel viral regulators, we performed expression profiling in...
The genetic basis of myelodysplastic syndromes (MDS) is heterogeneous, and various combinations somatic mutations are associated with different clinical phenotypes outcomes. Whether the MDS influences outcome allogeneic hematopoietic stem-cell transplantation (HSCT) unclear.We studied 401 patients or acute myeloid leukemia (AML) evolving from (MDS/AML). We used massively parallel sequencing to examine tumor samples collected before HSCT for in 34 recurrently mutated genes neoplasms. then...
Abstract Recent studies suggest that NOTCH signaling can promote epithelial-mesenchymal transitions and augment through AKT, an important growth survival pathway in epithelial cells prostate cancer particular. Here we show JAGGED1, a receptor ligand, is significantly more highly expressed metastatic as compared with localized or benign prostatic tissues, based on immunohistochemical analysis of JAGGED1 expression human tumor samples from 154 men. Furthermore, high subset clinically tumors...
Cis-regulatory modules are combinations of regulatory elements occurring in close proximity to each other that control the spatial and temporal expression genes. The ability identify them a genome-wide manner depends on availability accurate models search methods able detect putative with enhanced sensitivity specificity.We describe implementation method for transcription factor binding sites (TFBSs) based hidden Markov built from alignments known sites. We 1,079 TFBSs using experimentally...
The mapper2 Database (http://genome.ufl.edu/mapperdb) is a component of mapper2, web-based system for the analysis transcription factor binding sites in multiple genomes. database contains predicted identified promoters all human, mouse and Drosophila genes using 1017 probabilistic models representing over 600 different factors. In this article we outline current contents describe its user interface detail. We then discuss ongoing work to extend experimental data add capabilities. Finally,...
Loss or inactivation of the histone H3K27 demethylase UTX occurs in several malignancies, including multiple myeloma (MM). Using an isogenic cell system, we found that loss leads to deactivation gene expression ultimately promoting proliferation, clonogenicity, adhesion, and tumorigenicity MM cells. Moreover, mutant cells showed increased vitro vivo sensitivity inhibition EZH2, a methyltransferase generates H3K27me3. Such was related decrease levels IRF4 c-MYC activation repressors...
Abstract By examination of the cancer genomics database, we identified a new set mutations in core histones that frequently recur patient samples and are predicted to disrupt nucleosome stability. In support this idea, characterized glutamate lysine mutation histone H2B at amino acid 76 (H2B-E76K), found particularly bladder head neck cancers, disrupts interaction between H4. Although H2B-E76K forms dimers with H2A, it does not form stable octamers H3 H4 vitro, when reconstituted DNA...
Single Nucleotide Polymorphisms (SNPs) are an increasingly important tool for the study of human genome. SNPs can be used as markers to create high-density genetic maps, causal candidates diseases, or reconstruct history our SNP-based studies rely on availability large numbers validated, high-frequency whose position chromosomes is known with precision. Although collections exist in public databases, researchers need tools effectively retrieve and manipulate them.We describe implementation...
Abstract We conducted a genome‐wide association study (GWAS) to discover single nucleotide polymorphisms (SNPs) associated with the severity of sickle cell anemia in 1,265 patients either “severe” or “mild” disease based on network model severity. analyzed data using SNP analysis and novel set enrichment (SSEA) developed clusters SNPs. Single discovered 40 SNPs that were strongly (odds for >1,000); 32 we could analyze an independent 163 patients, five replicated, eight showed consistent...
The strong familiality of living to extreme ages suggests that human longevity is genetically regulated. majority genes found thus far be associated with primarily function in lipoprotein metabolism and insulin/IGF-1 signaling. There are likely many more genetic modifiers remain discovered.
Abstract Cannabis is a diverse and polymorphic species. To better understand cannabinoid synthesis inheritance its impact on pathogen resistance, we shotgun sequenced assembled trio (sibling pair their offspring) utilizing long read single molecule sequencing. This resulted in the most contiguous sativa assemblies to date. These reference were further annotated with full-length male female mRNA sequencing (Iso-Seq) help inform isoform complexity, gene model predictions identification of Y...
Certain Enterobacteriaceae strains contain a 54-kb biosynthetic gene cluster referred to as "pks" encoding the biosynthesis of secondary metabolite, colibactin. Colibactin-producing E. coli promote colorectal cancer (CRC) in preclinical models, and vitro induce specific mutational signature that is also detected human CRC genomes. Yet, how colibactin exposure affects landscape vivo remains unclear. Here we show colibactin-producing coli-driven colonic tumors mice have significantly higher...
The critical clinical question in prostate cancer research is: How do we develop means of distinguishing aggressive disease from indolent disease? Using a combination proteomic and expression array data, identified set 36 genes with concordant dysregulation protein products that could be evaluated situ by quantitative immunohistochemistry. Another five biomarkers were included using linear discriminant analysis, determined the optimal model used to predict progression consisted 12 proteins....
Supercentenarians (age 110+ years old) generally delay or escape age-related diseases and disability well beyond the age of 100 this exceptional survival is likely to be influenced by a genetic predisposition that includes both common rare variants. In report, we describe complete genomic sequences male female supercentenarians, >114 old. We show that: (1) sequence variant spectrum these two individuals' DNA largely comparable existing non-supercentenarian genomes; (2) individuals do not...
The current study investigates DNA methylation as a possible epigenetic regulator of transcription associated with aging and cognitive function. Young aged male Fischer 344 rats were behaviorally characterized on set shifting task, whole genome bisulfite sequencing was employed to profile the methylome medial prefrontal cortex (mPFC). also compared RNA expression in mPFC from same animals. Variability mainly observed for CpG sites opposed CHG CHH sites. Gene bodies, specifically introns,...
Abstract Melanomas can adopt multiple transcriptional states. Little is known about the epigenetic drivers of these cell states, limiting our ability to regulate melanoma heterogeneity. Here, we identify stress-induced HDAC8 activity as driving brain metastasis development. Exposure melanocytes and cells stresses increases activation leading a neural crest-stem state an amoeboid, invasive phenotype that seeding brain. Using ATAC-Seq ChIP-Seq show increased alters chromatin structure by...