BACKGROUND Clinically, both viral load and genotypes have been found to be major predictors of antiviral therapy outcome regarding chronic hepatitis C and they are, under normal circumstances, performed as separate assays. DESIGN AND METHODS In order to improve the diagnostic strategy and subsequently reduce the reagent costs we have developed and established the simultaneous quantification a...

OBJECTIVE We aimed to evaluate the correct assignment of HCV genotype/subtypes 1a and 1b by cobas® HCV genotyping (GT) assay (Roche Molecular Diagnostics) compared with nonstructural protein 5B (NS5B) sequencing. PATIENTS AND METHODS Clinical samples from 153 patients submitted for HCV genotyping were studied. After genotyping with the cobas® HCV GT, sequencing of a 387 bp fragment in the NS5...

Hepatitis C virus (HCV) is a major cause of chronic liver disease, the prevalence of the infection being currently estimated at approximately 170 milion persons worldwide. HCV isolates have been classified into six main genotypes. Quick and accurate genotyping of HCV is becoming increasingly important for clinical management of chronic infection and as an epidemiological marker. Genotyping meth...

Two mini-sequencing methods, FP-TDI (template-directed dye-terminator incorporation with fluorescence-polarization) and MassArray (matrix assisted laser desorption ionization time of flight detection mass spectrometry), were optimized. A numeric standard was introduced to evaluate the SNP scoring quality of FP-TDI assay, thus made the optimization work easier. At the same time, using multi-PCR ...

A molecular genotyping assay for human immunodeficiency virus type 1 (HIV-1) circulating in Southeast Asia is difficult to design because of the high level of genetic diversity. We developed a multiplex real-time polymerase chain reaction (PCR) assay to detect subtype B, CRF01_AE, CRF33_01B, and three newly described circulating recombinant forms, (CRFs) (CRF53_01B, CRF54_01B, and CRF58_01B). A...

OBJECTIVES Thiopurine compounds are commonly used in the treatment of childhood acute lymphoblastic leukemia, and as immunosuppressants following organ transplantation or for treatment of various autoimmune disorders. Thiopurine S-methyltransferase (TPMT) is required for detoxification, through S-methylation, of 6-thioguanine nucleotides (TGNs), a byproduct of thiopurine metabolism. Single nucl...

that genotyping of UGT1A1*28, *6, and *27 by the newly developed Invader assay agreed almost completely with the genotyping results obtained with established methods and that the Invader assay provides rapid detection of polymorphisms. We recommend use of 100 ng/10 L for accurate screening. We previously suggested that determination of the UGT1A1 polymorphisms before irinotecan treatment could ...

With the launch of the GeneChip® Targeted Genotyping System 1.5, algorithm enhancements have been made to the Molecular Inversion Probe (MIP) data analysis algorithms. These improvements do not affect the overall framework of MIP data analysis described in [1]. Their effect on the data is to improve the quality of genotyping as well as the speed of clustering. Improvements vary according to the...

In order to develop a novel system for the discrimination of five ginseng cultivars (Panax ginseng Meyer), single nucleotide polymorphism (SNP) genotyping assays with real-time polymerase chain reaction were conducted. Nucleotide substitution in gDNA library clones of P. ginseng cv. Yunpoong was targeted for the SNP genotyping assay. From these SNP sites, a set of modified SNP specific fluoresc...

BACKGROUND In general, autosomal dominant inherited hearing loss does not have a founder mutation, with the causative mutation different in each family. For this reason, there has been a strong need for efficient diagnosis methods for autosomal dominant sensorineural hearing loss (ADSNHL) patients. This study sought to verify the effectiveness of our analysis algorithm for the screening of ADSN...