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PubMed Journals Articles About "Watson McKinney Artrip" RSS

11:00 EDT 23rd May 2018 | BioPortfolio

Watson McKinney Artrip PubMed articles on BioPortfolio. Our PubMed references draw on over 21 million records from the medical literature. Here you can see the latest Watson McKinney Artrip articles that have been published worldwide.

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Showing "Watson McKinney Artrip" PubMed Articles 1–25 of 43

Molecular criteria for mutagenesis by DNA methylation: Some computational elucidations.

Alkylating agents and N-nitroso compounds are well-known mutagens and carcinogens which act by alkylating DNA at the nucleobase moieties. Criteria for mutagenicity through DNA alkylation include (a) absence of the Watson-Crick (N1-guanine and N3-thymine) protons, (b) rotation of the alkyl group away from the H-bonding zone, (c) configuration of the alkylated base pair close to the Watson-Crick type. This computational study brings together these three molecular criteria for the first time. Three methylated ...


Energy Landscape and Pathways for Transitions Between Watson-Crick and Hoogsteen Base Pairing in DNA.

The recent discovery that Hoogsteen (HG) base pairs are widespread in DNA across diverse sequences, and positional contexts, could have important implications for understanding DNA replication and DNA-protein recognition. While evidence is emerging that the Hoogsteen conformation could be a thermodynamically accessible conformation of the DNA duplex, and provide a means to expand its functionality, relatively little is known about the molecular mechanism underlying the Watson-Crick to Hoogsteen transition. ...

Reply to correspondence by Smart and Watson.


Does the Watson-Jones or Modified Smith-Petersen Approach Provide Superior Exposure for Femoral Neck Fracture Fixation?

A well-reduced femoral neck fracture is more likely to heal than a poorly reduced one, and increasing the quality of the surgical exposure makes it easier to achieve anatomic fracture reduction. Two open approaches are in common use for femoral neck fractures, the modified Smith-Petersen and Watson-Jones; however, to our knowledge, the quality of exposure of the femoral neck exposure provided by each approach has not been investigated.

"Atomic psychiatry? An essay" by Ian Patrick (Paddy) Burges Watson.

Active site interactions impact phosphoryl transfer during replication of damaged and undamaged DNA by Escherichia coli DNA Polymerase I.

Replicative DNA polymerases are able to discriminate between very similar substrates with high accuracy. One mechanism by which Escherichia coli DNA polymerase I checks for Watson-Crick geometry is through a hydrogen bonding fork between Arg668 and the incoming dNTP and the minor groove of the primer terminus. The importance of the Arg-fork was examined by disrupting it with either a guanine to 3-deazaguanine substitution at the primer terminus or the use of a carbocyclic deoxyribose analog of dUTP. Using t...

Friends with Benefits: Microenvironmental NRG1β and HGF Mediate HER2-Targeted Resistance in L-HER2+ and HER2E Breast Cancer.

Watson et al. use microenvironment microarrays to assess how extrinsic signals within the tumor microenvironment influence HER2breast cancer resistance to the HER2-targeted tyrosine kinase inhibitor lapatinib.

Molecular dynamics analysis of stabilities of the telomeric Watson-Crick duplex and the associated i-motif as a function of pH and temperature.

This work deals with a molecular dynamics analysis of the protonated and deprotonated states of the natural sequence d[(CCCTAA)CCCT] of the telomeric DNA forming the intercalated i-motif or paired with the sequence d[(CCCTAA)CCCT] and forming the Watson-Crick (WC) duplex. By utilizing the amber force field for nucleic acids we built the i-motif and the WC duplex either with native cytosines or using their protonated forms. We studied, by applying molecular dynamics simulations, the role of hydrogen bonds be...

Volatile organic compounds from Wickerhamomyces anomalus, Metschnikowia pulcherrima and Saccharomyces cerevisiae inhibit growth of decay causing fungi and control postharvest diseases of strawberries.

The effectiveness of Wickerhamomyces anomalus, Metschnikowia pulcherrima and Saccharomyces cerevisiae as biocontrol agents on postharvest decay of strawberry (Fragaria x ananassa, cv. 'Alba') fruit, and their inhibitory activities on some decay-causing fungi were evaluated. Volatile organic compounds from these yeasts decreased mycelial growth of Botrytis cinerea by 69%, and by less for Monilinia fructicola, Alternaria alternata, Aspergillus carbonarius, Penicillium digitatum, Cladosporium spp., and Colleto...

What is real success in nursing research?

Who and what can define what success is in research? With the United Kingdom's seven-yearly Research Excellence Framework and recent anniversaries such as the 40 of the Journal of Advanced Nursing providing an opportunity to look back and assess progress made and successes achieved. But how much do we do this as individual researchers?. Research success in nursing occurs mostly in a small disciplinary goldfish bowl. While the profession has progressed in terms of the number of journals, professors and volum...

The minimally invasive anterolateral approach versus the traditional anterolateral approach (Watson-Jones) for hip hemiarthroplasty after a femoral neck fracture: an analysis of clinical outcomes.

The minimally invasive (MI) anterolateral approach is a relatively new approach for the treatment of femoral neck fractures with a hemiarthroplasty (HA). There is limited research available presenting clinical outcomes after an HA using the MI approach. Therefore the aim of the present study was to compare clinical outcomes of the MI and traditional anterolateral approaches in patients after HA.

Structural properties and gene-silencing activity of chemically modified DNA-RNA hybrids with parallel orientation.

We report, herein, a new class of RNAi trigger molecules based on the unconventional parallel hybridization of two oligonucleotide chains. We have prepared and studied several parallel stranded (ps) duplexes, in which the parallel orientation is achieved through incorporation of isoguanine and isocytosine to form reverse Watson-Crick base pairs in ps-DNA:DNA, ps-DNA:RNA, ps-(DNA-2'F-ANA):RNA, and ps-DNA:2'F-RNA duplexes. The formation of these duplexes was confirmed by UV melting experiments, FRET and CD ...

No-Go Theorem for Nonstandard Explanations of the τ→K_{S}πν_{τ} CP Asymmetry.

The CP asymmetry in τ→K_{S}πν_{τ}, as measured by the BABAR collaboration, differs from the standard model prediction by 2.8σ. Most nonstandard interactions do not allow for the required strong phase needed to produce a nonvanishing CP asymmetry, leaving only new tensor interactions as a possible mechanism. We demonstrate that, contrary to previous assumptions in the literature, the crucial interference between vector and tensor phases is suppressed by at least 2 orders of magnitude due to Watson's f...

Methylation-Specific PCR.

Cytosine methylation is a DNA modification generally associated with transcriptional silencing. Factors that regulate methylation have been linked to human disease, yet how they contribute to malignancies remains largely unknown. Methylation of DNA can change the functional state of regulatory regions, but does not change the Watson-Crick base pairing of cytosine. Moreover, sequence symmetry of CpGs enables propagation of the methyl mark through cell division. This potential for inheritance coupled with the...

A Mechanistic Explanation for the Regioselectivity of Nonenzymatic RNA Primer Extension.

A working model of nonenzymatic RNA primer extension could illuminate how prebiotic chemistry transitioned to biology. All currently known experimental reconstructions of nonenzymatic RNA primer extension yield a mixture of 2'-5' and 3'-5' internucleotide linkages. Although long seen as a major problem, the causes of the poor regioselectivity of the reaction are unknown. We used a combination of different leaving groups, nucleobases, and templating sequences to uncover the factors that yield selective forma...

Recent progress in dissecting molecular recognition by DNA polymerases with non-native substrates.

DNA polymerases must discriminate the correct Watson-Crick base pair-forming deoxynucleoside triphosphate (dNTP) substrate from three other dNTPs and additional triphosphates found in the cell. The rarity of misincorporations in vivo, then, belies the high tolerance for dNTP analogs observed in vitro. Advances over the last 10 years in single-molecule fluorescence and electronic detection of dNTP analog incorporation enable exploration of the mechanism and limits to base discrimination by DNA polymerases. S...

How Large Can we Build a Cyclic Assembly? Impact of Ring Size on Chelate Cooperativity in Noncovalent Macrocyclizations.

Self-assembled systems rely on intramolecular cooperative effects to control their growth and regulate their shape, thus yielding discrete, well-defined structures. However, as the size of the system increases, cooperative effects tend to dissipate. We analyse here this situation by studying a set of oligomers of different lengths capped with guanosine and cytidine nucleosides, which associate in cyclic tetramers by complementary Watson-Crick H-bonding interactions. As the monomer length increases, and thus...

RNA-Targeted Therapeutics.

RNA-targeted therapies represent a platform for drug discovery involving chemically modified oligonucleotides, a wide range of cellular RNAs, and a novel target-binding motif, Watson-Crick base pairing. Numerous hurdles considered by many to be impassable have been overcome. Today, four RNA-targeted therapies are approved for commercial use for indications as diverse as Spinal Muscular Atrophy (SMA) and reduction of low-density lipoprotein cholesterol (LDL-C) and by routes of administration including subcut...

Electromagnetic Charge Radius of the Pion at High Precision.

We present a determination of the pion charge radius from high precision data on the pion vector form factor from both timelike and spacelike regions, using a novel formalism based on analyticity and unitarity. At low energies, instead of the poorly known modulus of the form factor, we use its phase, known with high accuracy from Roy equations for ππ elastic scattering via the Fermi-Watson theorem. We use also the values of the modulus at several higher timelike energies, where the data from e^{+}e^{-} an...

Design rules of synthetic non-coding RNAs in bacteria.

One of the long-term goals of synthetic biology is to develop designable genetic parts with predictable behaviors that can be utilized to implement diverse cellular functions. The discovery of non-coding RNAs and their importance in cellular processing have rapidly attracted researchers' attention towards designing functional non-coding RNA molecules. These synthetic non-coding RNAs have simple design principles governed by Watson-Crick base pairing, but exhibit increasingly complex functions. Importantly, ...

Triple-helix molecular switch-based aptasensors and DNA sensors.

Utilization of traditional analytical techniques is limited because they are generally time-consuming and require high consumption of reagents, complicated sample preparation and expensive equipment. Therefore, it is of great interest to achieve sensitive, rapid and simple detection methods. It is believed that nucleic acids assays, especially aptamers, are very important in modern life sciences for target detection and biological analysis. Aptamers and DNA-based sensors have been widely used for the design...

Surprising Sequence Effects on GU Closure of Symmetric 2 × 2 Nucleotide RNA Internal Loops.

GU base pairs are important RNA structural motifs and often close loops. Accurate prediction of RNA structures relies upon understanding the interactions determining structure. The thermodynamics of some 2 × 2 nucleotide internal loops closed by GU pairs are not well understood. Here, several self-complementary oligonucleotide sequences expected to form duplexes with 2 × 2 nucleotide internal loops closed by GU pairs were investigated. Surprisingly, nuclear magnetic resonance revealed that many of the seq...

Investigation of Nascent Base Pair and Polymerase Behavior in the Presence of Mismatches in DNA Polymerase I Using Molecular Dynamics.

Optimizing DNA polymerases for a broad range of tasks requires an understanding of the factors influencing polymerase fidelity, but many details of polymerase behavior remain unknown, especially in the presence of mismatched nascent base pairs. Using molecular dynamics, the large fragment of Bacillus stearothermophilus DNA polymerase I is simulated in the presence of all sixteen possible standard nucleoside triphosphate-template (dNTP-dN) pairs, including four Watson-Crick pairs and twelve mismatches. The p...

Heterochiral DNA Strand-Displacement Circuits.

The absence of a straightforward strategy to interface native D-DNA with its enantiomer L-DNA - oligonucleotides of opposite chirality are incapable of forming contiguous Watson-Crick (WC) base pairs with each other - has enforced a "homochiral" paradigm over the field of dynamic DNA nanotechnology. As a result, chirality, a key intrinsic property of nucleic acids, is often overlooked as a design element for engineering DNA-based devices, potentially limiting the types of behaviors that can be achieved usin...

Labeling the lines: A test of a six-mechanism model of chromatic detection.

Six linear chromatic mechanisms are sufficient to account for the pattern of threshold elevations produced by chromatic noise masking in the (L,M) plane of cone space (Shepard, Swanson, McCarthy, & Eskew, 2016). Here, we report results of asymmetric color matching of the threshold-level tests from that detection study and use those matches to test the detection model. We assume the mechanisms are univariant labeled lines (Rushton, 1972; Watson & Robson, 1981), implying that the chromaticities of physically ...


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