Chemistry in Bioinformatics

A preprint of an invited submission to BioMedCentral Bioinformatics. This short manuscript is an overview or the current problems and opportunities in publishing chemical information. Full details of technology are given in the sibling manuscript http://www.dspace.cam.ac.uk/handle/1810/34579 The manuscript is the authors' preprint although it has been automatically transformed into this archived PDF by the submission system. The authors are not responsible for the formattingChemical information is now seen as critical for most areas of life sciences. But unlike Bioinformatics, where data is Openly available and freely re−usable, most chemical information is closed and cannot be re−distributed without permission. This has led to a failure to adopt modern informatics and software techniques and therefore paucity of chemistry in bioinformatics. New technology, however, offers the hope of making chemical data (compounds and properties) Free during the authoring process. We argue that the technology is already available; we require a collective agreement to enhance publication protocols

Weighted feature selection criteria for visual servoing of a telerobot

Because of the continually changing environment of a space station, visual feedback is a vital element of a telerobotic system. A real time visual servoing system would allow a telerobot to track and manipulate randomly moving objects. Methodologies for the automatic selection of image features to be used to visually control the relative position between an eye-in-hand telerobot and a known object are devised. A weighted criteria function with both image recognition and control components is used to select the combination of image features which provides the best control. Simulation and experimental results of a PUMA robot arm visually tracking a randomly moving carburetor gasket with a visual update time of 70 milliseconds are discussed

Researching creatively with pupils in Assessment for Learning (AfL) classrooms on experiences of participation and consultation

This paper reports on an ESRC TLRP project, Consulting Pupils on the Assessment of their Learning (CPAL). The CPAL project provides an additional theoretical perspective to the ‘educational benefits’ perspective of engaging pupil voice in learning and teaching (Rudduck et al., 2003) through its exploration of pupil rights specifically in relation to assessment issues presently on the policy agenda in the Northern Ireland context – notably Assessment for Learning (AfL). An emergent framework for assessing pupil rights, based on Article 12 of the United Nations Convention on the Rights of the Child (Lundy, 2007), is being used to explore the ways in which AfL classroom practice creates the conditions for increased pupil participation and consultation. Pupil views on their AfL classroom experiences and participation are explored by means of a variety of pupil-centred, creative research methods that engage and stimulate pupils to observe, communicate and analyse their learning and assessment experiences and give meaning to them. This presentation highlights preliminary data based on a sample of 11-14 years pupils' experiences of participation and consultation in classrooms adopting AfL pedagogical principles, and identifies characteristics that support or inhibit pupil participation in their learning and the expression of their views about such matters

The Implications of Interactions for Science and Philosophy

Reductionism has dominated science and philosophy for centuries. Complexity has recently shown that interactions---which reductionism neglects---are relevant for understanding phenomena. When interactions are considered, reductionism becomes limited in several aspects. In this paper, I argue that interactions imply non-reductionism, non-materialism, non-predictability, non-Platonism, and non-nihilism. As alternatives to each of these, holism, informism, adaptation, contextuality, and meaningfulness are put forward, respectively. A worldview that includes interactions not only describes better our world, but can help to solve many open scientific, philosophical, and social problems caused by implications of reductionism.Comment: 12 pages, 2 figure

Study of foldable elastic tubes for large space structure applications, phase 3

A bi-convex foldable elastic tube, suitable for use in self deploying space structures, was subjected to a series of buckling tests to deterine initial buckling loads, collapse loads, and the buckling mode. The tube is cylindrical with a cross-section that is lenticular-like with flared edges. It is capable of being flattened in the center and folded compactly, storing up strain energy in the process. Upon removal of constraint, it springs back to its original straight configuration, releasing the stored strain energy. The tests showed that this type of tube has good resistance to buckling, with the initial buckling loads all falling within or above the range of those for comparable circular cylindrical tubes

Quasi-infra-red fixed points and renormalisation group invariant trajectories for non-holomorphic soft supersymmetry breaking

In the MSSM the quasi-infra-red fixed point for the top-quark Yukawa coupling gives rise to specific predictions for the soft-breaking parameters. We discuss the extent to which these predictions are modified by the introduction of additional ``non-holomorphic'' soft-breaking terms. We also show that in a specific class of theories there exists an RG-invariant trajectory for the ``non-holomorphic'' terms, which can be understood using a holomorphic spurion term.Comment: 24 pages, TeX, two figures. Uses Harvmac (big) and epsf. Minor errors corrected, and the RG trajectory explained in terms of a holomorphic spurion ter

Anisotropy of Solar Wind Turbulence between Ion and Electron Scales

The anisotropy of turbulence in the fast solar wind, between the ion and electron gyroscales, is directly observed using a multispacecraft analysis technique. Second order structure functions are calculated at different angles to the local magnetic field, for magnetic fluctuations both perpendicular and parallel to the mean field. In both components, the structure function value at large angles to the field S_perp is greater than at small angles S_par: in the perpendicular component S_perp/S_par = 5 +- 1 and in the parallel component S_perp/S_par > 3, implying spatially anisotropic fluctuations, k_perp > k_par. The spectral index of the perpendicular component is -2.6 at large angles and -3 at small angles, in broad agreement with critically balanced whistler and kinetic Alfven wave predictions. For the parallel component, however, it is shallower than -1.9, which is considerably less steep than predicted for a kinetic Alfven wave cascade.Comment: 4 pages, 4 figures, replaced to match published versio

Local information transfer as a spatiotemporal filter for complex systems

We present a measure of local information transfer, derived from an existing averaged information-theoretical measure, namely transfer entropy. Local transfer entropy is used to produce profiles of the information transfer into each spatiotemporal point in a complex system. These spatiotemporal profiles are useful not only as an analytical tool, but also allow explicit investigation of different parameter settings and forms of the transfer entropy metric itself. As an example, local transfer entropy is applied to cellular automata, where it is demonstrated to be a novel method of filtering for coherent structure. More importantly, local transfer entropy provides the first quantitative evidence for the long-held conjecture that the emergent traveling coherent structures known as particles (both gliders and domain walls, which have analogues in many physical processes) are the dominant information transfer agents in cellular automata.Comment: 12 page