Finite-size corrections for confined polymers in the extended de Gennes regime

Theoretical results for the extension of a polymer confined to a channel are usually derived in the limit of infinite contour length. But experimental studies and simulations of DNA molecules confined to nanochannels are not necessarily in this asymptotic limit. We calculate the statistics of the span and the end-to-end distance of a semiflexible polymer of finite length in the extended de Gennes regime, exploiting the fact that the problem can be mapped to a one-dimensional weakly self-avoiding random walk. The results thus obtained compare favourably with pruned-enriched Rosenbluth method (PERM) simulations of a three-dimensional discrete wormlike chain model of DNA confined in a nanochannel. We discuss the implications for experimental studies of linear $\lambda$-DNA confined to nanochannels at the high ionic strengths used in many experiments

Hairpins in the conformations of a confined polymer

If a semiflexible polymer confined to a narrow channel bends around by 180 degrees, the polymer is said to exhibit a hairpin. The equilibrium extension statistics of the confined polymer are well understood when hairpins are vanishingly rare or when they are plentiful. Here we analyze the extension statistics in the intermediate situation via experiments with DNA coated by the protein RecA, which enhances the stiffness of the DNA molecule by approximately one order of magnitude. We find that the extension distribution is highly non-Gaussian, in good agreement with Monte Carlo simulations of confined discrete wormlike chains. We develop a simple model that qualitatively explains the form of the extension distribution. The model shows that the tail of the distribution at short extensions is determined by conformations with one hairpin.Comment: Revised version. 22 pages, 7 figures, 2 tables, supplementary materia

Evolution of the fishtail-effect in pure and Ag-doped MG-YBCO

We report on magnetic measurements carried out in a textured YBa$_2$Cu$_3$O$_{7-\delta}$ and YBa$_2$(Cu$_{1-x}$Ag$_x$)$_3$O$_{7-\delta}$ (at $x \approx$ 0.02) crystals. The so-called fishtail-effect (FE) or second magnetization peak has been observed in a wide temperature range 0.4~$<T/T_c<$~0.8 for $\textbf{H}\parallel c$. The origin of the FE arises for the competition between surface barrier and bulk pinning. This is confirmed in a non-monotonically behavior of the relaxation rate $R$. The value $H_{max}$ for Ag-doped crystals is larger than for the pure one due to the presence of additional pinning centers, above all on silver atoms.Comment: 6 pages, 6 figure

YBCO-buffered NdBCO film with higher thermal stability in seeding REBCO Growth

In this work, we report a strengthened superheating effect caused by a buffering YBa2Cu3Oy (Y123 or YBCO) layer in the Nd1+xBa2-xCu3O7-y (Nd123 or NdBCO) thin film with MgO substrate (i.e., NdBCO/YBCO/MgO thin film). In the cold-seeding melt-textured (MT) growth, the NdBCO/YBCO/MgO film presented an even higher superheating level, about 20 {\deg}C higher than that of non-buffered NdBCO film (i.e., NdBCO/MgO film). Using this NdBCO/YBCO/MgO film as seeds and undergoing a maximum processing temperature (Tmax) up to 1120 {\deg}C, we succeeded in growing various RE1+xBa2-xCu3O7-y (REBCO, RE=rare elements) bulk superconductors, including Gd1+xBa2-xCu3O7-y (GdBCO), Sm1+xBa2-xCu3O7-y (SmBCO) and NdBCO that have high peritectic temperatures (Tp). The pole figure (X-Ray \phi-scan) measurement reveals that the NdBCO/YBCO/MgO film has better in-plane alignment than the NdBCO/MgO film, indicating that the induced intermediate layer improves the crystallinity of the NdBCO film, which could be the main origin of the enhanced thermal stability. In short, possessing higher thermal stability and enduring a higher Tmax in the MT process, the NdBCO/YBCO/MgO film is beneficial to the growth of bulk superconductors in two aspects: (1) broad application for high-Tp REBCO materials; (2) effective suppression against heterogeneous nucleation, which is of great assistance in growing large and high-performance REBCO crystals.Comment: 9 pages, 4 figure

Magnetostrictive behaviour of thin superconducting disks

Flux-pinning-induced stress and strain distributions in a thin disk superconductor in a perpendicular magnetic field is analyzed. We calculate the body forces, solve the magneto-elastic problem and derive formulas for all stress and strain components, including the magnetostriction $\Delta R/R$. The flux and current density profiles in the disk are assumed to follow the Bean model. During a cycle of the applied field the maximum tensile stress is found to occur approximately midway between the maximum field and the remanent state. An effective relationship between this overall maximum stress and the peak field is found.Comment: 8 pages, 6 figures, submitted to Supercond. Sci. Technol., Proceed. of MEM03 in Kyot

The two most common histological subtypes of malignant germ cell tumour are distinguished by global microRNA profiles, associated with differential transcription factor expression.

BACKGROUND: We hypothesised that differences in microRNA expression profiles contribute to the contrasting natural history and clinical outcome of the two most common types of malignant germ cell tumour (GCT), yolk sac tumours (YSTs) and germinomas. RESULTS: By direct comparison, using microarray data for paediatric GCT samples and published qRT-PCR data for adult samples, we identified microRNAs significantly up-regulated in YSTs (n = 29 paediatric, 26 adult, 11 overlapping) or germinomas (n = 37 paediatric). By Taqman qRT-PCR we confirmed differential expression of 15 of 16 selected microRNAs and further validated six of these (miR-302b, miR-375, miR-200b, miR-200c, miR-122, miR-205) in an independent sample set. Interestingly, the miR-302 cluster, which is over-expressed in all malignant GCTs, showed further over-expression in YSTs versus germinomas, representing six of the top eight microRNAs over-expressed in paediatric YSTs and seven of the top 11 in adult YSTs. To explain this observation, we used mRNA expression profiles of paediatric and adult malignant GCTs to identify 10 transcription factors (TFs) consistently over-expressed in YSTs versus germinomas, followed by linear regression to confirm associations between TF and miR-302 cluster expression levels. Using the sequence motif analysis environment iMotifs, we identified predicted binding sites for four of the 10 TFs (GATA6, GATA3, TCF7L2 and MAF) in the miR-302 cluster promoter region. Finally, we showed that miR-302 family over-expression in YST is likely to be functionally significant, as mRNAs down-regulated in YSTs were enriched for 3' untranslated region sequences complementary to the common seed of miR-302a~miR-302d. Such mRNAs included mediators of key cancer-associated processes, including tumour suppressor genes, apoptosis regulators and TFs. CONCLUSIONS: Differential microRNA expression is likely to contribute to the relatively aggressive behaviour of YSTs and may enable future improvements in clinical diagnosis and/or treatment.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are

Determining Material Response for Polyvinyl Butyral (PVB) in Blast Loading Situations

Protecting structures from the effect of blast loads requires the careful design of all building components. In this context, the mechanical properties of Polyvinyl Butyral (PVB) are of interest to designers as the membrane behaviour will affect the performance of laminated glass glazing when loaded by explosion pressure waves. This polymer behaves in a complex manner and is difficult to model over the wide range of strain rates relevant to blast analysis. In this study, data from experimental tests conducted at strain rates from 0.01 s−1 to 400 s−1 were used to develop material models accounting for the rate dependency of the material. Firstly, two models were derived assuming Prony series formulations. A reduced polynomial spring and a spring derived from the model proposed by Hoo Fatt and Ouyang were used. Two fits were produced for each of these models, one for low rate cases, up to 8 s−1, and one for high rate cases, from 20 s−1. Afterwards, a single model representing all rates was produced using a finite deformation viscoelastic model. This assumed two hyperelastic springs in parallel, one of which was in series with a non-linear damper. The results were compared with the experimental results, assessing the quality of the fits in the strain range of interest for blast loading situations. This should provide designers with the information to choose between the available models depending on their design needs

Functional Architecture of integrated framework for Facet-based Data Collection and Analysis

We present in this paper an integrated framework for collection and analysis of Facet-based text data. The integrated framework consists of four components: (1) user interface, (2) web crawler, (3) data analyzer, and (4) database (DB). User interface is used to set input Facet and option values for web crawling and text data analysis using a graphical user interface (GUI). In fact, it offers outcomes of research by data visualization. The web crawler collects text data from articles posted on the web based on input Facets. The data analyzer classifies papers in "relevant articles" (i.e., word sets to be included on such posts) and "nonrelevant articles" with predefined information. It then analyzes the text data of the relevant articles and visualizes the results of the data analysis. Ultimately, the DB holds the generated text information, the predefined user-defined expertise and the outcomes of data analysis and data visualization. We verify the feasibility of an integrated framework by means of proof of concept (PoC) prototyping. The experimental results show that the implemented prototype reliably collects and analyzes the text data of the articles

Femtosecond laser pulse driven caustic spin wave beams

Controlling the directionality of spin waves is a key ingredient in wave-based computing methods such as magnonics. In this paper, we demonstrate this particular aspect by using an all-optical point-like source of continuous spin waves based on frequency comb rapid demagnetization. The emitted spin waves contain a range of k-vectors and by detuning the applied magnetic field slightly off the ferromagnetic resonance (FMR), we observe X-shaped caustic spin-wave patterns at $70^{\circ}$ propagation angles as predicted by theory. When the harmonic of the light source approaches theFMR, the caustic pattern gives way to uniaxial spin-wave propagation perpendicular to the in-plane component of the applied field. This field-controlled propagation pattern and directionality of optically emitted short-wavelength spin waves provide additional degrees of freedom when designing magnonic devices.Comment: 5 pages, 4 figure