Northern Barbados accretionary prism: Structure, deformation, and fluid flow interpreted from 3D seismic and well-log data

We reanalyzed 3D seismic reflection and logging-while-drilling data from the toe of the northern Barbados accretionary prism to interpret structure, deformation, and fluid flow related to subduction processes. The seafloor amplitude and coherence reveal an abrupt change in the thrust orientation from NNE at the thrust front and north and NNW about 5 km west of the thrust front. These thrust sets are separated by a triangular-shaped quiet area, which may represent a zone of low strength. The northeast-trending band of strong negative amplitude and high coherence in the décollement, known to be an interval of arrested consolidation, overlaps the quiet area, suggesting that the arrested consolidation may be related to the lack of thrust imbrication, and thus, vertical drainage for fluid in the accretionary prism. Fractal analysis of the décollement and top of the subducting oceanic basement indicates that the relief of the décollement correlates with the topography of the oceanic basement. Differential compaction of the underthrust sediment overlying the rugged oceanic basement, together with the basement faults that penetrate into the décollement probably caused relief or even faulting in the décollement

Phase transition between quantum and classical regimes for the escape rate of a biaxial spin system

Employing the method of mapping the spin problem onto a particle one, we have derived the particle Hamiltonian for a biaxial spin system with a transverse or longitudinal magnetic field. Using the Hamiltonian and introducing the parameter $p (\equiv (U_{max}-E)/(U_{max}-U_{min}))$ where $U_{max}$ (U_{min}) corresponds to the top (bottom) of the potential and $E$ is the energy of the particle, we have studied the first- or second-order transition around the crossover temperature between thermal and quantum regimes for the escape rate, depending on the anisotropy constant and the external magnetic field. It is shown that the phase boundary separating the first- and second-order transition and its crossover temperature are greatly influenced by the transverse anisotropy constant as well as the transverse or longitudinal magnetic field.Comment: 5 pages + 3 figures, to be published in Phys. Rev.

A detailed Hapmap of the Sitosterolemia locus spanning 69 kb; differences between Caucasians and African-Americans

BACKGROUND: Sitosterolemia is an autosomal recessive disorder that maps to the sitosterolemia locus, STSL, on human chromosome 2p21. Two genes, ABCG5 and ABCG8, comprise the STSL and mutations in either cause sitosterolemia. ABCG5 and ABCG8 are thought to have evolved by gene duplication event and are arranged in a head-to-head configuration. We report here a detailed characterization of the STSL in Caucasian and African-American cohorts. METHODS: Caucasian and African-American DNA samples were genotypes for polymorphisms at the STSL locus and haplotype structures determined for this locus RESULTS: In the Caucasian population, 13 variant single nucleotide polymorphisms (SNPs) were identified and resulting in 24 different haplotypes, compared to 11 SNPs in African-Americans resulting in 40 haplotypes. Three polymorphisms in ABCG8 were unique to the Caucasian population (E238L, INT10-50 and G575R), whereas one variant (A259V) was unique to the African-American population. Allele frequencies of SNPs varied also between these populations. CONCLUSION: We confirmed that despite their close proximity to each other, significantly more variations are present in ABCG8 compared to ABCG5. Pairwise D' values showed wide ranges of variation, indicating some of the SNPs were in strong linkage disequilibrium (LD) and some were not. LD was more prevalent in Caucasians than in African-Americans, as would be expected. These data will be useful in analyzing the proposed role of STSL in processes ranging from responsiveness to cholesterol-lowering drugs to selective sterol absorption

Structure-Function Relationship of Cytoplasmic and Nuclear IκB Proteins: An In Silico Analysis

Cytoplasmic IκB proteins are primary regulators that interact with NF-κB subunits in the cytoplasm of unstimulated cells. Upon stimulation, these IκB proteins are rapidly degraded, thus allowing NF-κB to translocate into the nucleus and activate the transcription of genes encoding various immune mediators. Subsequent to translocation, nuclear IκB proteins play an important role in the regulation of NF-κB transcriptional activity by acting either as activators or inhibitors. To date, molecular basis for the binding of IκBα, IκBβ and IκBζ along with their partners is known; however, the activation and inhibition mechanism of the remaining IκB (IκBNS, IκBε and Bcl-3) proteins remains elusive. Moreover, even though IκB proteins are structurally similar, it is difficult to determine the exact specificities of IκB proteins towards their respective binding partners. The three-dimensional structures of IκBNS, IκBζ and IκBε were modeled. Subsequently, we used an explicit solvent method to perform detailed molecular dynamic simulations of these proteins along with their known crystal structures (IκBα, IκBβ and Bcl-3) in order to investigate the flexibility of the ankyrin repeat domains (ARDs). Furthermore, the refined models of IκBNS, IκBε and Bcl-3 were used for multiple protein-protein docking studies for the identification of IκBNS-p50/p50, IκBε-p50/p65 and Bcl-3-p50/p50 complexes in order to study the structural basis of their activation and inhibition. The docking experiments revealed that IκBε masked the nuclear localization signal (NLS) of the p50/p65 subunits, thereby preventing its translocation into the nucleus. For the Bcl-3- and IκBNS-p50/p50 complexes, the results show that Bcl-3 mediated transcription through its transactivation domain (TAD) while IκBNS inhibited transcription due to its lack of a TAD, which is consistent with biochemical studies. Additionally, the numbers of identified flexible residues were equal in number among all IκB proteins, although they were not conserved. This could be the primary reason for their binding partner specificities

RNAi Methodologies for the Functional Study of Signaling Molecules

RNA interference (RNAi) was investigated with the aim of achieving gene silencing with diverse RNAi platforms that include small interfering RNA (siRNA), short hairpin RNA (shRNA) and antisense oligonucleotides (ASO). Different versions of each system were used to silence the expression of specific subunits of the heterotrimeric signal transducing G-proteins, G alpha i2 and G beta 2, in the RAW 264.7 murine macrophage cell line. The specificity of the different RNA interference (RNAi) platforms was assessed by DNA microarray analysis. Reliable RNAi methodologies against the genes of interest were then developed and applied to functional studies of signaling networks. This study demonstrates a successful knockdown of target genes and shows the potential of RNAi for use in functional studies of signaling molecules

Circulating tumor cells detected by lab-on-adisc: Role in early diagnosis of gastric cancer

[Background] The use of circulating tumor cells (CTCs) as an early diagnostic biomarker and prognostic indicator after surgery or chemotherapy has been suggested for various cancers. This study aimed to evaluate CTCs in patients who underwent gastrectomy for gastric cancer and to explore their clinical usefulness in the early diagnosis of gastric cancer. [Methods] A total of 116 patients with gastric cancer who underwent gastrectomy and 31 healthy volunteers were prospectively included between 2014 and 2015. Peripheral blood samples were collected before gastrectomy, and CTCs were examined using a centrifugal microfluidic system with a new fluid-assisted separation technique. [Results] After creating a receiver operating characteristic curve to identify the discriminative CTC value needed differentiate patients with gastric cancer from healthy volunteers, sensitivity and specificity were nearly optimized at a CTC threshold of 2 per 7.5 mL of blood. Of the 102 persons with a CTC level >= 2 per 7.5 mL of blood, 99 (97.1%) had gastric cancer, and of the 45 persons with a CTC level <2 per 7.5 mL of blood, 28 (62.2%) were healthy controls. Accordingly, the sensitivity and specificity for the differentiation of patients with gastric cancer from healthy controls were 85.3% and 90.3%, respectively. However, the presence of CTCs was not associated with any clinicopathologic features such as staging, histologic type, or mucin phenotype. [Conclusion] Although we could not prove the clinical feasibility of CTCs for gastric cancer staging, our results suggest a potential role of CTCs as an early diagnostic biomarker of gastric cancer

Asymptotic expressions for turbulent burning velocity at the leading edge of a premixed flame brush and their validation by published measurement data

This paper presents validation of new analytical expressions for the turbulent burning velocity, S-T, based on asymptotic behavior at the leading edge (LE) in turbulent premixed combustion. Reaction and density variation are assumed to be negligible at the LE to avoid the cold boundary difficulty in the statistically steady state. Good agreement is shown for the slopes, dS(T)/du', with respect to L-c/delta(f) at low turbulence, with both normalized by those of the reference cases. delta(f) is the inverse of the maximum gradient of reaction progress variable through an unstretched laminar flame, and L-c is the characteristic length scale given as burner diameter or measured integral length scale. Comparison is made for thirty-five datasets involving different fuels, equivalence ratios, H-2 fractions in fuel, pressures, and integral length scales from eight references [R. C. Aldredge et al., "Premixed-flame propagation in turbulent Taylor-Couette flow," Combust. Flame 115, 395 (1998); M. Lawes et al., " The turbulent burning velocity of iso-octane/air mixtures," Combust. Flame 159, 1949 (2012); H. Kido et al., " Influence of local flame displacement velocity on turbulent burning velocity," Proc. Combust. Inst. 29, 1855 (2002); J. Wang et al., " Correlation of turbulent burning velocity for syngas/air mixtures at high pressure up to 1.0 MPa," Exp. Therm. Fluid Sci. 50, 90 (2013); H. Kobayashi et al., " Experimental study on general correlation of turbulent burning velocity at high pressure," Proc. Combust. Inst. 27, 941 (1998); C. W. Chiu et al., " High-pressure hydrogen/carbon monoxide syngas turbulent burning velocities measured at constant turbulent Reynolds numbers," Int. J. Hydrogen Energy 37, 10935 (2012); P. Venkateswaran et al., " Pressure and fuel effects on turbulent consumption speeds of H-2/CO blends," Proc. Combust. Inst. 34, 1527 (2013); M. Fairweather et al., " Turbulent burning rates of methane and methane-hydrogen mixtures," Combust. Flame 156, 780 (2009)]. The turbulent burning velocity is shown to increase as the flamelet thickness, delta(f), decreases at a high pressure, for an equivalence ratio slightly rich or close to stoichiometric and for mixture of a high H2 fraction. Two constants involved are C to scale turbulent diffusivity as a product of turbulent intensity and characteristic length scale and C-s to relate delta(f) with the mean effective L-m.L-m = (D-mu/S-Lu(0)) is the scale of exponential decay at the LE of an unstretched laminar flame. The combined constant, KC/C-s, is adjusted to match measured turbulent burning velocities at low turbulence in each of the eight different experimental setups. All measured S-T/S-Lu(0) values follow the line, KDtu/D-mu + 1, at low turbulent intensities and show bending below the line due to positive mean curvature and broadened flamelet thickness at high turbulent intensities. Further work is required to determine the constants, C-s and K, and the factor, L-m/L*(m)-L-m (f)), that is responsible for bending in different conditions of laminar flamelet and incoming turbulence. (C) 2014 AIP Publishing LLC.open1123sciescopu