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Displaying 76 - 100 of 229

The oxidative DNA glycosylases of Mycobacterium tuberculosis exhibit different substrate specificities from their Escherichia coli counterparts

February 4, 2010
Author(s)
Yin Guo, Viswanath Bandaru, Pawel Jaruga, Xiaobei Zhao, Cynthia Burrows, Shigenori Iwai, Miral M. Dizdar, Jeffrey Bond, Susan Wallace
The DNA glycosylases function in the first step of the base excision repair process that is responsible for removing endogenous oxidative purine and pyrimidine damages from DNA. The DNA glycosylases that remove oxidized DNA bases fall into two general

A New 26plex Autosomal STR Assay to Aid Human Identity Testing*(dagger)

September 1, 2009
Author(s)
Carolyn R. Steffen, John M. Butler, Peter Vallone
Multiplex polymerase chain reaction (PCR) has become the standard in forensic testing. Currently there are two commercial multiplex PCR amplification kits available that simultaneously amplify 16 short tandem repeat (STR) loci that include the 13 FBI

Substrate specificity and excision kinetics of natural polymorphic variants and phosphomimetic mutants of human 8-oxoguanine-DNA glycosylase

September 1, 2009
Author(s)
Viktoriya Sidorenko, Arthur P. Grollman, Pawel Jaruga, Miral M. Dizdar, Dmitry Zharhov
Human 8-oxoguanine-DNA-glycosylase (OGG1) efficiently removes mutagenic 8-oxoguanine (8-oxoGua) and 2,6-diamino-4-hydroxy-5-formamidopyrimidine (FapyGua) when paired with cytosine in damaged DNA. Excision of 8-oxoGua mispaired with adenine may lead to GT

Factors Affecting Quantification of Total DNA by UV Spectroscopy and PicoGreen Fluorescence

August 26, 2009
Author(s)
Marcia J. Holden, Ross J. Haynes, Savelas A. Rabb, Neena Satija, Kristina Yang, Joe Blasic
The amount of total DNA in a preparation extracted from tissues can be measured several ways, each method offering advantages and disadvantages. It is of interest for the sake of accuracy in quantitation to compare methodologies and determine if good

Plant and fungal Fpg homologs are formamidopyrimidine DNA glycosylases but not 8-oxoguanine DNA glycosylases

May 1, 2009
Author(s)
Scott D. Kathe, Ramiro Barrantes-Reynolds, Pawel Jaruga, Michael Newton, Cynthia Burrows, Viswanath Bandaru, Miral M. Dizdar, Jeffrey Bond, Susan Wallace
Formamidopyrimidine DNA glycosylase (Fpg) and endonuclease VIII (Nei) share an overall common three dimensional structure and primary amino acid sequence in conserved structural motifs but have different substrate specificities, with bacterial Fpg proteins

Nanofluidic Structures with Complex Three Dimensional Surfaces

March 31, 2009
Author(s)
Samuel M. Stavis, Elizabeth Strychalski, Michael Gaitan
A fabrication process was developed to construct nanofluidic devices with complex three dimensional (3D) topographies. A single layer of grayscale photolithography enabled arbitrary and simultaneous control of numerous nanoscale etch depths in a fused

Measurement of formamidopyrimidines in DNA

December 15, 2008
Author(s)
Pawel Jaruga, Guldal Kirkali, Miral M. Dizdar
Formamidopyrimidines, 4,6-diamino-5-formamidopyrimidine (FapyAde) and 2,6-diamino-4-hydroxy-5-formamidopyrimidine (FapyGua), are among major lesions in DNA generated by hydroxyl radical attack, UV radiation or photosensitization in vitro and in vivo

Demonstration of Rapid Multiplex PCR Amplification Involving 16 Genetic Loci

December 1, 2008
Author(s)
Peter Vallone, Carolyn R. Steffen, John M. Butler
Current forensic DNA typing is conducted in approximately eight to ten hours with steps including DNA extraction, quantitation, polymerase chain reaction (PCR) amplification of multiple short tandem repeat (STR) loci, capillary electrophoresis separation

Addressing Y-Chromosome Short Tandem Repeat(Y-STR) Allele Nomenclature

November 25, 2008
Author(s)
John M. Butler, Margaret C. Kline, Amy E. Decker
Currently 120 different Y-chromosome short tandem repeat (Y-STR) markers are used by various genetic genealogy testing laboratories. In some cases, different laboratories may designate the same Y-STR allele with two different nomenclatures making data

Characterization of 26 miniSTR loci for improved analysis of degraded DNA samples

January 25, 2008
Author(s)
Carolyn R. Steffen, Margaret C. Kline, Michael Coble, John M. Butler
An additional 20 novel mini-short tandem repeat (miniSTR) loci have been developed and characterized to aid in the analysis of degraded DNA samples. These new markers produce short PCR products in the target range of 50 150 base pairs (bp) by moving the

Concordance Study Between the AmpFlSTR((R)) MiniFiler(TM) PCR Amplification Kit and Conventional STR Typing Kits

July 25, 2007
Author(s)
Carolyn R. Steffen, Margaret C. Kline, Julio J. Mulero, Robert E. Lagace, Chien-Wei Chang, Lori K. Hennessy, John M. Butler
The AmpFlSTR MiniFiler PCR Amplification kit developed by Applied Biosystems enables size reduction on eight of the larger short tandem repeat (STR) loci amplified in the Identifiler kit, which will aid recovery of information from highly degraded DNA

Analysis of artificially degraded DNA using STRs and SNPs results of a collaborative European (EDNAP) exercise

December 1, 2006
Author(s)
L. A. Dixon, A. E. Dobbins, H. Pulker, John M. Butler, Peter M. Vallone, Michael D. Coble, W. Parson, B. Berger, P. Grubwieser, H. S. Mogensen, N. Morling, K. Nielsen, J. J. Sanchez, E. Petkovski, A. Carracedo, P. Sanchez-Diz, E. Ramos-Luis, M. Brion, J. A. Irwin, R. S. Just, O. Loreille, T. J. Parsons, D. Syndercombe-Court, H. Schmitter, B. Stradmann-Bellinghausen, K. Bender, P. Gill

Analysis of potential cancer biomarkers in mitochondrial DNA

December 1, 2006
Author(s)
J P. Jakupciak, G. D. Dakubo, Samantha D. Maragh, R. L. Parr
Understanding mitochondrial biology is a fundamental research goal in human genetics and medicine. The use of mitochondria to serve as a biomarker is rapidly expanding in disciplines ranging from cancer, rare metabolic diseases, aging, the tracing of human

An Optimized Electrophoresis System for Tandem SSCP and Heteroduplex Analysis of p53 Gene Exons 5-9 on Glass Microfluidic Chips

October 1, 2006
Author(s)
Christa N. Hestekin, J P. Jakupciak, Thomas N. Chiesl, C D. O'Connell, Annelise E. Barron, C W. Kan
With the sequencing of the human genome, there is a growing need for rapid and sensitive genotyping methods that can be incorporated into the clinical setting. DNA-based methods, such as single strand conformational polymorphism (SSCP) and heteroduplex
Displaying 76 - 100 of 229