High sensitivity micro-fiber Mach-Zehnder interferometric temperature sensors with a high index ring layer

The influence of the high index ring layer (HIRL) in a tapered fiber Mach-Zehnder interferometer (MZI) on the interference observed, and thus on its potential applications in temperature sensing, has been investigated. The MZI was comprised of a tapered Ring Core Fiber (RCF), spliced between two single mode fibers (SMF). Since part of core mode from the SMF was converted into cladding modes in the RCF, due to the mismatch in the cores between the RCF and SMF, the residual power enters and then propagates along the center of the RCF (silica). The difference in phase between the radiation travelling along these different paths is separated by the HIRL to generate an interference effect. Compared with fiber interferometers based on core and cladding mode interference, the thin fiber HIRL is capable of separating the high order cladding modes and the silica core mode, under grazing incident conditions. Therefore, the optical path difference (OPD) and the sensitivity are both substantially improved over what is seen in conventional devices, showing their potential for interferometric temperature sensor applications. The optimum temperature sensitivity obtained was 186.6 pm/°C, which is ∼ 11.7 times higher than has been reported previously

Extraction of VubV_{ub} from the Decay B→πlνB\to \pi l \nu

We develop the perturbative QCD formalism including Sudakov effects for semi-leptonic $B$ meson decays. We evaluate the differential decay rate of $B\to \pi l \nu$, and find that the perturbative calculation is reliable for the energy fraction of the pion above 0.3. Combining predictions from the soft pion theorems, we extract the value of the matrix element $|V_{ub}|$ which is roughly $2.7\times 10^{-3}$.Comment: 10 pages, CCUTH-94-05, IP-ASTP-13-9

Comparative DNA methylome analysis of endometrial carcinoma reveals complex and distinct deregulation of cancer promoters and enhancers

BACKGROUND: Aberrant DNA methylation is a hallmark of many cancers. Classically there are two types of endometrial cancer, endometrioid adenocarcinoma (EAC), or Type I, and uterine papillary serous carcinoma (UPSC), or Type II. However, the whole genome DNA methylation changes in these two classical types of endometrial cancer is still unknown. RESULTS: Here we described complete genome-wide DNA methylome maps of EAC, UPSC, and normal endometrium by applying a combined strategy of methylated DNA immunoprecipitation sequencing (MeDIP-seq) and methylation-sensitive restriction enzyme digestion sequencing (MRE-seq). We discovered distinct genome-wide DNA methylation patterns in EAC and UPSC: 27,009 and 15,676 recurrent differentially methylated regions (DMRs) were identified respectively, compared with normal endometrium. Over 80% of DMRs were in intergenic and intronic regions. The majority of these DMRs were not interrogated on the commonly used Infinium 450K array platform. Large-scale demethylation of chromosome X was detected in UPSC, accompanied by decreased XIST expression. Importantly, we discovered that the majority of the DMRs harbored promoter or enhancer functions and are specifically associated with genes related to uterine development and disease. Among these, abnormal methylation of transposable elements (TEs) may provide a novel mechanism to deregulate normal endometrium-specific enhancers derived from specific TEs. CONCLUSIONS: DNA methylation changes are an important signature of endometrial cancer and regulate gene expression by affecting not only proximal promoters but also distal enhancers. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/1471-2164-15-868) contains supplementary material, which is available to authorized users

Identifying rare variants using a Bayesian regression approach

Recent advances in next-generation sequencing technologies have made it possible to generate large amounts of sequence data with rare variants in a cost-effective way. Statistical methods that test variants individually are underpowered to detect rare variants, so it is desirable to perform association analysis of rare variants by combining the information from all variants. In this study, we use a Bayesian regression method to model all variants simultaneously to identify rare variants in a data set from Genetic Analysis Workshop 17. We studied the association between the quantitative risk traits Q1, Q2, and Q4 and the single-nucleotide polymorphisms and identified several positive single-nucleotide polymorphisms for traits Q1 and Q2. However, the model also generated several apparent false positives and missed many true positives, suggesting that there is room for improvement in this model

N-WASP Is Required for Structural Integrity of the Blood-Testis Barrier

During spermatogenesis, the blood-testis barrier (BTB) segregates the adluminal (apical) and basal compartments in the seminiferous epithelium, thereby creating a privileged adluminal environment that allows post-meiotic spermatid development to proceed without interference of the host immune system. A key feature of the BTB is its continuous remodeling within the Sertoli cells, the major somatic component of the seminiferous epithelium. This remodeling is necessary to allow the transport of germ cells towards the seminiferous tubule interior, while maintaining intact barrier properties. Here we demonstrate that the actin nucleation promoting factor Neuronal Wiskott-Aldrich Syndrome Protein (N-WASP) provides an essential function necessary for BTB restructuring, and for maintaining spermatogenesis. Our data suggests that the N-WASP-Arp2/3 actin polymerization machinery generates branched-actin arrays at an advanced stage of BTB remodeling. These arrays are proposed to mediate the restructuring process through endocytic recycling of BTB components. Disruption of N-WASP in Sertoli cells results in major structural abnormalities to the BTB, including mis-localization of critical junctional and cytoskeletal elements, and leads to disruption of barrier function. These impairments result in a complete arrest of spermatogenesis, underscoring the critical involvement of the somatic compartment of the seminiferous tubules in germ cell maturation

Interactions between Magnetic Nanowires and Living Cells : Uptake, Toxicity and Degradation

We report on the uptake, toxicity and degradation of magnetic nanowires by NIH/3T3 mouse fibroblasts. Magnetic nanowires of diameters 200 nm and lengths comprised between 1 {\mu}m and 40 {\mu}m are fabricated by controlled assembly of iron oxide ({\gamma}-Fe2O3) nanoparticles. Using optical and electron microscopy, we show that after 24 h incubation the wires are internalized by the cells and located either in membrane-bound compartments or dispersed in the cytosol. Using fluorescence microscopy, the membrane-bound compartments were identified as late endosomal/lysosomal endosomes labeled with lysosomal associated membrane protein (Lamp1). Toxicity assays evaluating the mitochondrial activity, cell proliferation and production of reactive oxygen species show that the wires do not display acute short-term (< 100 h) toxicity towards the cells. Interestingly, the cells are able to degrade the wires and to transform them into smaller aggregates, even in short time periods (days). This degradation is likely to occur as a consequence of the internal structure of the wires, which is that of a non-covalently bound aggregate. We anticipate that this degradation should prevent long-term asbestos-like toxicity effects related to high aspect ratio morphologies and that these wires represent a promising class of nanomaterials for cell manipulation and microrheology.Comment: 21 pages 12 figure

Intermanifold similarities in partial photoionization cross sections of helium

Using the eigenchannel R-matrix method we calculate partial photoionization cross sections from the ground state of the helium atom for incident photon energies up to the N=9 manifold. The wide energy range covered by our calculations permits a thorough investigation of general patterns in the cross sections which were first discussed by Menzel and co-workers [Phys. Rev. A {\bf 54}, 2080 (1996)]. The existence of these patterns can easily be understood in terms of propensity rules for autoionization. As the photon energy is increased the regular patterns are locally interrupted by perturber states until they fade out indicating the progressive break-down of the propensity rules and the underlying approximate quantum numbers. We demonstrate that the destructive influence of isolated perturbers can be compensated with an energy-dependent quantum defect.Comment: 10 pages, 10 figures, replacement with some typos correcte

Is preview benefit from word n + 2 a common effect in reading Chinese? Evidence from eye movements

Although most studies of reading English (and other alphabetic languages) have indicated that readers do not obtain preview benefit from word n + 2, Yang, Wang, Xu, and Rayner (2009) reported evidence that Chinese readers obtain preview benefit from word n + 2. However, this effect may not be common in Chinese because the character prior to the target word in Yang et al.’s experiment was always a very high frequency function word. In the current experiment, we utilized a relatively low frequency word n + 1 to examine whether an n + 2 preview benefit effect would still exist and failed to find any preview benefit from word n + 2. These results are consistent with a recent study which indicated that foveal load modulates the perceptual span during Chinese reading (Yan, Kliegl, Shu, Pan, & Zhou, 2010). Implications of these results for models of eye movement control are discussed

Perturbative QCD Analysis of BB Meson Decays

Resummation of large QCD radiative corrections, including leading and next-to-leading logarithms, in pion electromagnetic form factor is reviewed. Similar formalism is applied to exclusive processes involving heavy mesons, and leads to Sudakov suppression for the semi-leptonic decay $B\to\pi l\nu$. It is found that, with the inclusion of Sudakov effects, perturbative QCD analysis of this decay is possible for the energy fraction of the pion above 0.3. By combining predictions from the soft pion theorems, we estimate that the upper limit of the KM matrix element $|V_{ub}|$ is roughly 0.003.Comment: 26 pages in latex, figures are available for reques

Deep underground laboratory measurement of 13^{13}C(α\alpha,nn)16^{16}O in the Gamow windows of the ss- and ii-processes

The $^{13}$C($\alpha$,$n$)$^{16}$O reaction is the main neutron source for the slow-neutron-capture (s-) process in Asymptotic Giant Branch stars and for the intermediate (i-) process. Direct measurements at astrophysical energies in above-ground laboratories are hindered by the extremely small cross sections and vast cosmic-ray induced background. We performed the first consistent direct measurement in the range of $E_{\rm c.m.}=$0.24 MeV to 1.9 MeV using the accelerators at the China Jinping Underground Laboratory (CJPL) and Sichuan University. Our measurement covers almost the entire i-process Gamow window in which the large uncertainty of the previous experiments has been reduced from 60\% down to 15\%, eliminates the large systematic uncertainty in the extrapolation arising from the inconsistency of existing data sets, and provides a more reliable reaction rate for the studies of the s- and i-processes along with the first direct determination of the alpha strength for the near-threshold state