Rebecca L. Margraf

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BACKGROUND Port-wine stains (PWS) are capillary malformations, typically located in the dermis of the head and neck, affecting 0.3% of the population. Current theories suggest that port-wine stains are caused by somatic mutations that disrupt vascular development. OBJECTIVES Understanding PWS genetic determinants could provide insight into new treatments.(More)
Phevor integrates phenotype, gene function, and disease information with personal genomic data for improved power to identify disease-causing alleles. Phevor works by combining knowledge resident in multiple biomedical ontologies with the outputs of variant-prioritization tools. It does so by using an algorithm that propagates information across and between(More)
The 144-kDa ␭2 protein is a structural component of mammalian reovirus particles and contains the guanylyltransferase activity involved in adding 5؅ caps to reovirus mRNAs. After incubation of reovirus T3D core particles at 52°C, the ␭2 protein became sensitive to partial protease degradation. Sequential treatments with heat and chymotrypsin caused(More)
Hybridization probe melting analysis can be complicated by the presence of sequence variation (benign polymorphisms or other mutations) near the targeted mutation. We investigated the use of "masking" probes to differentiate alleles with similar probe melting temperatures. Selected sequence variation was masked by incorporating mismatches (deletion,(More)
Although 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. Currently, some 46 non-synonymous VUS entries exist in curated(More)
The genotype of the infecting hepatitis C virus (HCV) helps determine the patient's prognosis and the duration of treatment. Heteroduplex mobility analysis (HMA) is a rapid, inexpensive method for genotyping of HCV that does not require sequencing. We developed an HMA that uses temperature gradient capillary electrophoresis (TGCE) to differentiate HCV(More)
Pactolus is a cell surface protein expressed by murine neutrophils. Pactolus is similar to the beta integrins, except it lacks a functional metal ion-dependent adhesion site domain and is expressed without an alpha-chain partner. The majority of the Pactolus protein is held within the cell in dense granules in a highly glycosylated form. This intracellular(More)
BACKGROUND The hepatitis C virus (HCV) genotype determines patient prognosis and duration of treatment, but sequencing of the gene is lengthy and labor-intensive. We used a commercially available nucleic acid extraction system to develop a single-tube extraction-to-sequencing (STETS) method for HCV genotyping. METHODS HCV RNA was purified and amplified in(More)
Multisample, nonindexed pooling combined with next-generation sequencing (NGS) was used to discover RET proto-oncogene sequence variation within a cohort known to be unaffected by multiple endocrine neoplasia type 2 (MEN2). DNA samples (113 Caucasians, 23 persons of other ethnicities) were amplified for RET intron 9 to intron 16 and then divided into 5(More)
Next-generation sequencing (NGS) for clinical research and diagnostics is expanding as technical complexity and costs decline. It is now possible to diagnose inherited disorders based on whole-genome or exome sequencing of affected and unaffected relatives or even single affected individuals. To facilitate the use of NGS as a diagnostic tool for identifying(More)