The self-assembly of DNA Holliday junctions studied with a minimal model

In this paper, we explore the feasibility of using coarse-grained models to simulate the self-assembly of DNA nanostructures. We introduce a simple model of DNA where each nucleotide is represented by two interaction sites corresponding to the phosphate-sugar backbone and the base. Using this model, we are able to simulate the self-assembly of both DNA duplexes and Holliday junctions from single-stranded DNA. We find that assembly is most successful in the temperature window below the melting temperatures of the target structure and above the melting temperature of misbonded aggregates. Furthermore, in the case of the Holliday junction, we show how a hierarchical assembly mechanism reduces the possibility of becoming trapped in misbonded configurations. The model is also able to reproduce the relative melting temperatures of different structures accurately, and allows strand displacement to occur.Comment: 13 pages, 14 figure

3D Object reconstruction from a single depth view with adversarial learning

In this paper, we propose a novel 3D-RecGAN approach, which reconstructs the complete 3D structure of a given object from a single arbitrary depth view using generative adversarial networks. Unlike the existing work which typically requires multiple views of the same object or class labels to recover the full 3D geometry, the proposed 3D-RecGAN only takes the voxel grid representation of a depth view of the object as input, and is able to generate the complete 3D occupancy grid by filling in the occluded/missing regions. The key idea is to combine the generative capabilities of autoencoders and the conditional Generative Adversarial Networks (GAN) framework, to infer accurate and fine-grained 3D structures of objects in high-dimensional voxel space. Extensive experiments on large synthetic datasets show that the proposed 3D-RecGAN significantly outperforms the state of the art in single view 3D object reconstruction, and is able to reconstruct unseen types of objects. Our code and data are available at: https://github.com/Yang7879/3D-RecGAN

Discovery of a novel biomarker in the urine in women with endometriosis

Objective: To investigate whether proteins secreted in urine differ between women with and without endometriosis. Design: Laboratory study using human urine. Setting: University-based laboratory. Patient(s): Women with and without endometriosis undergoing laparoscopy, hysteroscopy and curettage. Intervention(s): Urine collection from women with and without endometriosis. Main Outcome Measure(s): Proteomic techniques and mass spectrometry to identify proteins secreted in the urine of women with and without endometriosis. Result(s): On average, 133 proteins were significantly different between women with and without endometriosis. Cytokeratin-19 was highly up-regulated in the urine of women with endometriosis. Conclusion(s): Cytokeratin-19 may be a valuable urinary biomarker for endometriosis. © 2011 American Society for Reproductive Medicine, Published by Elsevier Inc

The maximally entangled symmetric state in terms of the geometric measure

The geometric measure of entanglement is investigated for permutation symmetric pure states of multipartite qubit systems, in particular the question of maximum entanglement. This is done with the help of the Majorana representation, which maps an n qubit symmetric state to n points on the unit sphere. It is shown how symmetries of the point distribution can be exploited to simplify the calculation of entanglement and also help find the maximally entangled symmetric state. Using a combination of analytical and numerical results, the most entangled symmetric states for up to 12 qubits are explored and discussed. The optimization problem on the sphere presented here is then compared with two classical optimization problems on the S^2 sphere, namely Toth's problem and Thomson's problem, and it is observed that, in general, they are different problems.Comment: 18 pages, 15 figures, small corrections and additions to contents and reference

Tracking the reflexivity of the (dis)engaged citizen: some methodological reflections

The relationship between governments and citizens in many contemporary democracies is haunted by uncertainty and sociologists face the task of listening effectively to citizens’ own reflections on this uncertain relationship. This article reflects on the qualitative methodology of a recently completed UK project which used a combination of diary and multiple interviews/ focus groups to track over a fieldwork period of up to a year citizens’ reflections on their relationship to a public world and the contribution to this of their media consumption. In particular, the article considers how the project’s multiple methods enabled multiple angles on the inevitable artificiality and performative dimension of the diary process, resulting in rich data on people’s complex reflections on the uncertain position of the contemporary citizen

Celebrity culture and public connection: bridge or chasm?

Media and cultural research has an important contribution to make to recent debates about declines in democratic engagement: is for example celebrity culture a route into democratic engagement for those otherwise disengaged? This article contributes to this debate by reviewing qualitative and quantitative findings from a UK project on 'public connection'. Using self-produced diaries (with in-depth multiple interviews) as well as a nationwide survey, the authors argue that while celebrity culture is an important point of social connection sustained by media use, it is not linked in citizens' own accounts to issues of public concern. Survey data suggest that those who particularly follow celebrity culture are the least engaged in politics and least likely to use their social networks to involve themselves in action or discussion about public-type issues. This does not mean 'celebrity culture' is 'bad', but it challenges suggestions of how popular culture might contribute to effective democracy

Undetermined states: how to find them and their applications

We investigate the undetermined sets consisting of two-level, multi-partite pure quantum states, whose reduced density matrices give absolutely no information of their original states. Two approached of finding these quantum states are proposed. One is to establish the relation between codewords of the stabilizer quantum error correction codes (SQECCs) and the undetermined states. The other is to study the local complementation rules of the graph states. As an application, the undetermined states can be exploited in the quantum secret sharing scheme. The security is guaranteed by their undetermineness.Comment: 6 pages, no figur

The influence of intercalating perfluorohexane into lipid shells on nano and microbubble stability

Microbubbles are potential diagnostic and therapeutic agents. In vivo stability is important as the bubbles are required to survive multiple passages through the heart and lungs to allow targeting and delivery. Here we have systematically varied key parameters affecting microbubble lifetime to significantly increase in vivo stability. Whilst shell and core composition are found to have an important role in improving microbubble stability, we show that inclusion of small quantities of C6F14 in the microbubble bolus significantly improves microbubble lifetime. Our results indicate that C6F14 inserts into the lipid shell, decreasing surface tension to 19 mN m-1, and increasing shell resistance, in addition to saturating the surrounding medium. Surface area isotherms suggest that C6F14 incorporates into the acyl chain region of the lipid at a high molar ratio, indicating ∼2 perfluorocarbon molecules per 5 lipid molecules. The resulting microbubble boluses exhibit a higher in vivo image intensity compared to commercial compositions, as well as longer lifetimes

Work-Unit Absenteeism: Effects of Satisfaction, Commitment, Labor Market Conditions, and Time

Prior research is limited in explaining absenteeism at the unit level and over time. We developed and tested a model of unit-level absenteeism using five waves of data collected over six years from 115 work units in a large state agency. Unit-level job satisfaction, organizational commitment, and local unemployment were modeled as time-varying predictors of absenteeism. Shared satisfaction and commitment interacted in predicting absenteeism but were not related to the rate of change in absenteeism over time. Unit-level satisfaction and commitment were more strongly related to absenteeism when units were located in areas with plentiful job alternatives