Strand specificity

Cogan JG, Sun S, Stoflet ES, Schmidt LJ, Getz MJ, Strauch AR 1995 Plasticity of vascular smooth muscle alpha-actin gene transcription. Characterization of multiple, single-, and double-strand specific DNA-binding proteins in myoblasts and fibroblasts. J Biol Chem 270 11310-11321... 

Liu B, Bazan GC (2005) Methods for strand-specific DNA detection with cationic conjugated polymers suitable for incorporation into DNA chips and microarrays. Proc Natl Acad Sci USA 102 589-593... 

Dishari SK, Pu KY, Liu B (2009) Combinatorial energy transfer between an end-capped conjugated polyelectrolyte and chromophore-labeled PNA for strand-specific DNA detection. Macromol Rapid Commun 30 1645-1650... 

Results Two distinct peaks for the correlation of H3K4me3 enrichment and DNAse accessibility are obtained with a most frequent distance of 160 bp, indicatingthat open chromatin occurs with a specific distance of approximately 160 bp to regions with H 3 K4me3 methylation. Two peaks are obtainedbecause the measurement procedure of the open chromatin data and the histone modifications are not strand-specific. 

Strand-specific 5 -0-methylation of siRNA duplexes controls guide strand selection and targeting specificity. RNA 14 263-274... 

Modrich P. Strand-specific mismatch repair in mammalian cells. J Biol Chem 1997 272 24,727-24,730. 

Excessive amounts of RNA polymerase should not be used with the vector containing both T3 and T7 promoters. Otherwise, transcription may not be promoter-specific (strand-specific) Nonspecific initiation of RNA transcripts may also occur at the ends of the DNA template. This is most prevalent with a 3 -protrud-mg terminus Nonspecific initiation may be reduced by increasing the final NaCl concentration in the transcription buffer to 100 mM. When possible, restriction enzymes that leave blunt or 5 -protruding ends should be used... 

In PCR product, the untreated sample can be considered as a strand-specific intra-assay negative control. Electrochemical signals upon thermal denaturation undoubtedly designated the presence of a complementary sequence. Genosensors showed a different behaviour as underlined by the signal ratio between the denaturated and non-denaturated sample that highlighted the dissimilar efficiency of each probe. 

Starting with the first IPCR study, gel electrophoresis retains its potential as a fast and easy method for end-point determination of DNA amplificate for IPCR assays [10, 24, 25, 29, 31, 35, 36, 38, 39, 64], Readout is performed by intercalation fluorescence markers (e.g., ethidium bromide) and photometric/densitometric quantification of band signal intensities. The direct addition of a double-strand specific intercalation marker to the PCR amplificate and subsequent measurement of fluorescence in microwells proved to be of insufficient sensitivity for the quantification of IPCR amplificate [37]. Alternative approaches, such as radioactive labeling during PCR and subsequent imaging [33], were carried out but are not well suited for routine clinical application because of additional methodological requirements. An advantage of gel electrophoresis is the possibility of simultaneous amplificate detection for multiplex IPCR [41] and the ability to detect nonspecific amplification products. 

Gotow T, Miyaguchi K, Hashimoto PH (1991) Cytoplasmic architecture of the axon terminal filamentous strands specifically associated with synaptic vesicles. Neuroscience 40 587-98 Gower H, Rodnight R, Brammer MJ (1986) Ca2+ sensitivity of Ca2+-dependent protein kinase activities toward intrinsic proteins in synaptosomal membrane fragments from rat cerebral tissue. J Neurochem 46 440-7... 

Messing, J.B., 1981. M13tnp2 and derivatives a molecular cloning system for DNA sequencing, strand specific hybridization and in vitro mutagenesis, in Third Cleveland Symposium on Macromolecular Recombinant DNA, Ed. A. Walton (Elsevier, Amsterdam) 143-153. 

A system for making strand-specific M13 hybridization probes... 

Strand-specific DNA probes of high specific radioactivity are prepared by first annealing a primer to the single-stranded M13 DNA and then extending it with DNA polymerase (34). Annealing is accomplished in the presence of 100-fold molar excess of primer to DNA template (0.02-2 pg) in a reaction mixmre containing 50 mM NaCl, lOmMTris HCl, pH 7.5,and 7 mM MgCl2. The mixture is... 

For some applications, RNA probes are desirable because RNA-DNA hybrids are thermodynamically more stable than DNA-DNA hybrids. In addition, while the method described for production of strand-specific DNA probes requires purification of the radiolabeled DNA away from the unlabeled template, radioactive RNA probes may be obtained simply by treatment of the reaction mixture with RNase-free DNase I following RNA synthesis. 

Drosha A member of the RNAse 111 family of double-stranded specific endonu-... 

Parvoviridae is a family of small icosahedral, nonenveloped animal viruses that contain a linear ssDNA genome of approximately 5000 bases with short unique terminal palindromic sequences that fold back on themselves to form hairpin duplexes (van Regenmortel et al, 2000). They are further classified into two subfamilies, Parvcwirinae and Densovirinae, and various genera depending on host specificity, strand specificity of the genomic ssDNA, and on whether helper viruses are required for productive infection (dependoviruses). Members of the Parvoviridae... 

Determination of Strand Specificity and Reaction Rate Linearity... 

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