A5040165546- Ovarian cancer diagnosis and treatment
- Peptidase Inhibition and Analysis
- Histone Deacetylase Inhibitors Research
- Chromatin Remodeling and Cancer
- Gene expression and cancer classification
- Cancer-related molecular mechanisms research
- Molecular Biology Techniques and Applications
- Microbial Metabolic Engineering and Bioproduction
- Genomics, phytochemicals, and oxidative stress
- Genetic and phenotypic traits in livestock
- Cancer-related gene regulation
- RNA and protein synthesis mechanisms
- Epigenetics and DNA Methylation
- Bioinformatics and Genomic Networks
- RNA modifications and cancer
- Ubiquitin and proteasome pathways
- Circular RNAs in diseases
- RNA Research and Splicing
- Genomics and Phylogenetic Studies
- Bacteriophages and microbial interactions
- Genetics, Aging, and Longevity in Model Organisms
- Chronic Lymphocytic Leukemia Research
- Adipose Tissue and Metabolism
- Reproductive System and Pregnancy
- Coenzyme Q10 studies and effects
Huntsman Cancer Institute
2010-2024
University of Utah
2014-2024
University of Missouri
1992-1998
Inhibitors of DNA methyltransferase, typified by 5-aza-2′-deoxycytidine (5-Aza-CdR), induce the expression genes transcriptionally down-regulated de novo methylation in tumor cells. We utilized gene microarrays to examine effects 5-Aza-CdR treatment HT29 colon adenocarcinoma This analysis revealed induction a set that implicated IFN signaling cellular response 5-Aza-CdR. Subsequent investigations this correlates with signal transducer and activator transcription (STAT) 1, 2, 3 their...
Metastatic breast cancer remains challenging to treat, and most patients ultimately progress on therapy. This acquired drug resistance is largely due drug-refractory sub-populations (subclones) within heterogeneous tumors. Here, we track the genetic phenotypic subclonal evolution of four cancers through years treatment better understand how become drug-resistant. Recurrently appearing post-chemotherapy mutations are rare. However, bulk single-cell RNA sequencing reveal acquisition malignant...
Strains of Extraintestinal Pathogenic Escherichia coli (ExPEC) exhibit an array virulence strategies and are a major cause urinary tract infections, sepsis meningitis. Efforts to understand ExPEC pathogenesis challenged by the high degree genetic phenotypic variation that exists among isolates. Determining which traits widespread strain-specific will greatly benefit design more effective therapies. Towards this goal, we utilized quantitative footprinting technique known as transposon...
A microarray hybridization system that allows mixing in volumes comparable to those used by glass coverslips is presented. This composed of a disposable flexible lid binds 1 in. × 3 slides via an adhesive gasket, forming uniform 25-μm-thick chamber. chamber rests on base unit for temperature control. The contains two air-driven bladders continuously mix the fluid. Mixing enhances sensitivity from typical experiment 2−3-fold. particularly effective at high spotted probe and low labeled target...
With the rapidly falling cost and availability of high throughput sequencing microarray technologies, bottleneck for effectively using genomic analysis in laboratory clinic is shifting to one managing, analyzing, sharing data. Here we present three open-source, platform independent, software tools generating, distributing, visualizing These include a next generation sequencing/microarray LIMS project center (GNomEx); an application annotating programmatically distributing data community...
Neuropeptide Y (NPY) is an appetite hormone that acts centrally to control feeding behavior. The 5' and exon 2 regions of NPY2R, one five NPY receptor genes, have been weakly inconsistently implicated with obesity. With the ATG start site gene at beginning 2, single-nucleotide polymorphisms (SNPs) across intron 1 may show stronger associations obesity than expected. Two SNPs, three synonymous SNP were genotyped on 2,985 white Utah subjects. Previously associated FTO, NPY, NPY1R, MC4R,...
Examination of complex biological systems has long been achieved through methodical investigation the system's individual components. While informative, this strategy often leads to inappropriate conclusions about system as a whole. With advent high-throughput "omic" technologies, however, researchers can now simultaneously analyze an entire at level molecule (DNA, RNA, protein, metabolite) and process (transcription, translation, enzyme catalysis). This reduces likelihood improper...
Abstract Background: High-grade serous carcinoma (HGSC) gene expression subtypes are associated with differential survival. We characterized HGSC in Black individuals and considered whether differences by self-identified race may contribute to poorer survival among versus White individuals. Methods: included newly generated RNA sequencing data from array-based genotyping four existing studies of Japanese used K-means clustering, a method no predefined number clusters or dataset-specific...
Histone deacetylase (HDAC) inhibition has sporadic clinical efficacy in urothelial carcinoma; the genomic basis for response is not known. In two separate phase I trials testing pharmacokinetic aspects of HDAC inhibitors advanced solid tumors, we identified one patient with carcinoma who had a complete to belinostat, and partial panobinostat. The archived tumors responders were genomically characterized comparison others on trials. Urothelial cell lines treated panobinostat belinostat...
Abstract Although recent advances in the treatment of acute coronary heart disease have reduced mortality rates, few therapeutic strategies exist to mitigate progressive loss cardiac function that manifests as failure. Nuclear factor, erythroid 2 like ( Nfe2l2 , Nrf2 ) is a transcriptional regulator known confer transient myocardial cytoprotection following ischemic insult; however, its sustained activation paradoxically causes reductive environment characterized by excessive antioxidant...
In yeast, Adh1 (alcohol dehydrogenase 1) is an abundant zinc-binding protein that required for the conversion of acetaldehyde to ethanol. Through transcriptome profiling Schizosaccharomyces pombe genome, we identified a natural antisense transcript at adh1 locus induced in response zinc limitation. This (adh1AS) shows reciprocal expression pattern mRNA partner. this study, show increased adh1AS zinc-limited cells necessary repression gene and level result two mechanisms. At transcriptional...
The endoplasmic reticulum (ER) regulates protein folding and maintains proteostasis in cells. We observed that the ER transcriptome is impaired during chronic reductive stress (RS) cardiomyocytes. Here, we hypothesized a prolonged moderate treadmill exercise mitigates RS-induced dysfunction cardiac remodeling cardiac-specific constitutively active Nrf2 mice (CaNrf2-TG). RNA sequencing showed notable alterations of TG hearts at 4, 12, 24 weeks (16, 28, 35 genes, respectively). Notably,...
Nuclear factor, erythroid 2 like (Nfe2l2 or Nrf2), is a transcription factor that protects cells by maintaining homeostatic redox state during stress. The constitutive expression of Nrf2 (CaNrf2-TG) was previously shown to be pathological the heart over time. We tested hypothesis cardiac-specific full length (mNrf2-TG) would moderately increase basal antioxidant defense, triggering pro-reductive environment leading adaptive cardiac remodeling. Transgenic and non-transgenic (NTG) mice at 7–8...
Deep exome resequencing is a powerful approach for delineating patterns of protein-coding variation among genes, pathways, individuals and populations.We analyzed data from 2,440 European African ancestry as part the National Heart, Lung, Blood Institute's Exome Project, aim which to discover novel genes mechanisms that contribute heart, lung blood disorders.Each was sequenced mean coverage 116×, allowing detailed inferences about population genomic both common rare coding variation.We...
I normalize insert read countsFor each input/output pool pair (e.g., input 1 and blood 1), a relative occurrence frequency was derived by normalizing counts to the sum of all aligned reads that were detected in both samples.
379 Background: Pan-HDAC inhibitors were studied in two separate phase I pharmacokinetic solid tumor trials at Huntsman Cancer Institute. The objective of this study was to investigate the clinical efficacy HDAC inhibition those subjects with UC and correlate response molecular subtype translational studies validate benefit. Methods: Patients treated a pan-HDAC inhibitor Phase included. RECIST 1.1 used categorize responses. Expression profiling TCGA clustering performed using archived tissue...