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CreatorTitleDescriptionSubjectDate
1 Dwight, Zachary LawrenceuMELT: prediction of high-resolution melting curves and dynamic melting profiles of PCR products in a rich web applicationuMeltSM is a flexible web-based tool for predicting DNA melting curves and denaturation profiles of PCR products. The user defines an amplicon sequence and chooses a set of thermodynamic and experimental parameters that include nearest-neighbor stacking energies, loop entropy effects, cation (mono...2011
2 Dwight, Zachary LawrenceLaboratory driven, lean-to-adaptive prototyping in Parallel for Web software project identification and application development in health science researchClinical research laboratories, bioinformatics core facilities, and health science organizations often rely on heavy planning based software development models to propose, build, and distribute software as a consumable product. Projects in non-agile software life cycles tend to have rigid ?plan-desi...2012
3 Myers, Chris J.Formal verification of genetic circuitsResearchers are beginning to be able to engineer synthetic genetic circuits for a range of applications in the environmental, medical, and energy domains [1]. Crucial to the success of these efforts is the development of methods and tools to verify the correctness of these designs. This verification...2012-01-01
4 Mitchell, Joyce A.Bioinformatics linkage of heterogeneous clinical and genomic information in support of personalized medicineObjectives: Biomedical Informatics as a whole faces a difficult epistemological task, since there is no foundation to explain the complexities of modeling clinical medicine and the many relationships between genotype, phenotype, and environment. This paper discusses current efforts to investigate su...2007-01-01
5 Mitchell, Joyce A.Fuzzy measures on the Gene Ontology for gene product similarityOne of the most important objects in bioinformatics is a gene product (protein or RNA). For many gene products, functional information is summarized in a set of Gene Ontology (GO) annotations. For these genes, it is reasonable to include similarity measures based on the terms found in the GO or othe...2006-01-01
6 Mitchell, Joyce A.From phenotype to genotype: issues in navigating the available information resourcesObjectives-As part of an investigation of connecting health professionals and the lay public to both disease and genomic information, we assessed the availability and nature of the data from the Human Genome Project relating to human genetic diseases. Methods-We focused on a set of single gene disea...2003-01-01
7 Dwight, Zachary LawrenceuAnalyze: web-based high-resolution DNA melting analysis with comparison to thermodynamic predictionsAbstract-uAnalyzeSM is a web-based tool for analyzing high-resolution melting data of PCR products. PCR product sequence is input by the user and recursive nearest neighbor thermodynamic calculations used to predict a melting curve similar to uMELT (http://www.dna.utah.edu/umelt/umelt.html). Unproce...2012-01-01
8 Mitchell, Joyce A.International efforts in nanoinformatics research applied to nanomedicineBackground: Nanomedicine and nanoinformatics are novel disciplines facing substantial challenges. Since nanomedicine involves complex and massive data analysis and management, a new discipline named nanoinformatics is now emerging to provide the vision and the informatics methods and tools needed fo...2011-01-01
9 Mitchell, Joyce A.Nanoinformatics: a new area of research in nanomedicineAbstract: Over a decade ago, nanotechnologists began research on applications of nanomaterials for medicine. This research has revealed a wide range of different challenges, as well as many opportunities. Some of these challenges are strongly related to informatics issues, dealing, for instance, wit...2012-01-01
10 Mitchell, Joyce A.Computational Feature of Selection and Classification of RET Phenotypic SeverityAlthough many reported mutations in the RET oncogene have been directly associated with hereditary thyroid carcinoma, other mutations are labelled as uncertain gene variants because they have not been clearly associated with a clinical phenotype. The process of determining the severity of a mutation...2010-01-01
11 Huser, Vojtech; Del Fiol, Gulherme; Rocha, Roberto A.Use of XML Technology for E-resources Management within a Healthcare EnterpriseProvision of access to electronic resources to clinicians is becoming increasingly important. We have created a framework for librarians to manage access to e-resources at enterprise level rather than separately at individual hospital libraries. We present our initial project requirements, implement...Biomedical informatics; E-resources; Knowledge representation; Knowledge management; XML; XSLT; Intermountain Healthcare; Medical informatics2008-03-14
12 Myers, Chris J.Learning genetic regulatory network connectivity from time series dataAbstract-Recent experimental advances facilitate the collection of time series data that indicate which genes in a cell are expressed. This information can be used to understand the genetic regulatory network that generates the data. Typically, Bayesian analysis approaches are applied which neglect ...2011
13 Research in brief: Summer 2004Summaries of Selected Research Projects at the University of Utah Health Sciences CenterResearch: School of Medicine, College of Pharmacy;, College of Nursing, College of Health2004-06
14 Mitchell, Joyce A.Challenges and strategies of the Genetics Home ReferenceObjective: This paper focuses on the first two years of operation of Genetics Home Reference (GHR), a Web-based resource <http://www.ghr.nlm.nih.gov> for the general public that helps to explain the health implications of findings from the Human Genome Project. Methods and Findings: Key challenges o...2006-01-01
15 Crockett, David K.Identification of histoplasma -specific peptides in human urineHistoplasmosis is a severe dimorphic fungus infection, which is often difficult to diagnose due to similarity in symptoms to other diseases and lack of specific diagnostic tests. Urine samples from histoplasma-antigen-positive patients and appropriate controls were prepared using various sample prep...2012-01-01
16 Seyedhosseini Tarzjani, Seyed MojtabaA workflow for the automatic segmentation of organelles in electron microscopy image stacksElectron microscopy(EM) facilitates analysis of the form,distribution, and functional status of key organelle systems in various pathological processes,including those associated with neurodegenerative disease.Such EM data often provide important new in sights into the underlying disease mechanisms....2014-01-01
17 Mitchell, Joyce A.Predicting phenotypic severity of uncertain gene variants in the RET Proto-OncogeneAlthough reported gene variants in the RET oncogene have been directly associated with multiple endocrine neoplasia type 2 and hereditary medullary thyroid carcinoma, other mutations are classified as variants of uncertain significance (VUS) until the associated clinical phenotype is made clear. Cur...2011-01-01
18 Sung, Yun JuAn empirical comparison of meta-analysis and mega-analysis of individual participant data for identifying gene-environment interactionsMeta-analysis combining results from multiple studies is a standard practice in GWAS. For genetic main effects, meta-analysis has been shown to provide comparable results as mega-analysis that jointly analyzes the pooled data from the available studies. Gene-environment interaction (GEI) studies are...Gene-environment interactions2017
19 Spencer S. Eccles Health Sciences Library, University of UtahIAIMS Newsletter Fall 2002The IAIMS Newsletter is published three times a year (August, January, May) with one InfoFair supplement and provides valuable information about Library activities and resources as well as informative articles related to information technology.IAIMS2002-08-09
20 Spencer S. Eccles Health Sciences Library, University of UtahIAIMS Newsletter InfoFair 2001 SupplementThe IAIMS Newsletter provides valuable information about Library activities and resources as well as informative articles related to information technology.IAIMS2001-03-16
21 Regehr, JohnTesting static analyzers with randomly generated programsStatic analyzers should be correct. We used the random C-program generator Csmith, initially intended to test C compilers, to test parts of the Frama-C static analysis platform. Although Frama-C was already relatively mature at that point, fifty bugs were found and fixed during the process, in the f...2012-01-01
22 Crockett, David K.Utility of gene-specific algorithms for predicting pathogenicity of uncertain gene variantsThe rapid advance of gene sequencing technologies has produced an unprecedented rate of discovery for genome variation in humans. A growing numbered of authoritative clinical repositories archive gene variants and disease phenotype, yet there are currently many more gene variants that lack clear ann...2012
23 Poulter, Charles DalePredicting the functions and specificity of triterpenoid synthases: a mechanism-based multi-intermediate docking approachTerpenoid synthases construct the carbon skeletons of tens of thousands of natural products. To predict functions and specificity of triterpenoid synthases, a mechanism-based, multi-intermediate docking approach is proposed. In addition to enzyme function prediction, other potential applications of ...2014-01-01
24 Freire, JulianaProvenance in scientific workflow systemsThe automated tracking and storage of provenance information promises to be a major advantage of scientific workflow systems. We discuss issues related to data and workflow provenance, and present techniques for focusing user attention on meaningful provenance through "user views," for managing the ...Workflow systems; Provenance2007
25 Gardner, Reed M.The International Partnership for Health Informatics Education: Lessons Learned from Six Years of ExperienceBiomedical Informatics2005
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