Efficient and cost-effective experimental determination of kinetic constants and data: the success of a Bayesian systematic approach to drug transport, receptor binding, continuous culture and cell transport kinetics

Details about the parameters of kinetic systems are crucial for progress in both medical and industrial research, including drug development, clinical diagnosis and biotechnology applications. Such details must be collected by a series of kinetic experiments and investigations. The correct design of the experiment is essential to collecting data suitable for analysis, modelling and deriving the correct information. We have developed a systematic and iterative Bayesian method and sets of rules for the design of enzyme kinetic experiments. Our method selects the optimum design to collect data suitable for accurate modelling and analysis and minimises the error in the parameters estimated. The rules select features of the design such as the substrate range and the number of measurements. We show here that this method can be directly applied to the study of other important kinetic systems, including drug transport, receptor binding, microbial culture and cell transport kinetics. It is possible to reduce the errors in the estimated parameters and, most importantly, increase the efficiency and cost-effectiveness by reducing the necessary amount of experiments and data points measured. (C) 2003 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

Dendrimers: a new class of nanoscopic containers and delivery devices

Dendrimers and hyperbranched polymers are a relatively new class of materials with unique molecular architectures and dimensions in comparison to traditional linear polymers. This review details recent notable advances in the application of these new polymers in terms of the development of new polymeric delivery systems. Although comparatively young, the developing field of hyperbranched drug delivery devices is a rapidly maturing area and the key discoveries in drug-conjugate systems amongst others are highlighted. As a consequence of their ideal hyperbranched architectures, the utilisation of host-guest chemistries in dendrimers has been included within the scope of this review. (C) 2003 Elsevier Ltd. All rights reserved.

Knowledge-elicitation and data-mining: fusing human and industrial plant information

Knowledge-elicitation is a common technique used to produce rules about the operation of a plant from the knowledge that is available from human expertise. Similarly, data-mining is becoming a popular technique to extract rules from the data available from the operation of a plant. In the work reported here knowledge was required to enable the supervisory control of an aluminium hot strip mill by the determination of mill set-points. A method was developed to fuse knowledge-elicitation and data-mining to incorporate the best aspects of each technique, whilst avoiding known problems. Utilisation of the knowledge was through an expert system, which determined schedules of set-points and provided information to human operators. The results show that the method proposed in this paper was effective in producing rules for the on-line control of a complex industrial process. (C) 2005 Elsevier Ltd. All rights reserved.

Collaborative grid infrastructure for molecular simulations: The eMinerals minigrid as a prototype integrated computer and data grid

This paper describes a prototype grid infrastructure, called the eMinerals minigrid, for molecular simulation scientists. which is based on an integration of shared compute and data resources. We describe the key components, namely the use of Condor pools, Linux/Unix clusters with PBS and IBM's LoadLeveller job handling tools, the use of Globus for security handling, the use of Condor-G tools for wrapping globus job submit commands, Condor's DAGman tool for handling workflow, the Storage Resource Broker for handling data, and the CCLRC dataportal and associated tools for both archiving data with metadata and making data available to other workers.

Input quality matters: some comments on input type and age-effects in adult SLA.

In accord with the general program of researching factors relating to ultimate attainment and maturational constraints in adult language acquisition, this commentary highlights the importance of input differences in amount, type, and setting between naturalistic and classroom learners of an L2. It is suggested that these variables are often confounded with age factors. Herein, we wish to call attention to the possible deterministic role that the differences in the grammatical quality of classroom input have on development and on competence outcomes. Framing what we see as greater formal complexity of the learning task for classroom learners, we suggest that one might benefit from focusing less on difference and more on how classroom L2 learners, at least some of them, come to acquire all that they do despite crucial qualitative differences in their input.

Fire history and the Global Charcoal Database: a new tool for hypothesis testing and data exploration

Version 1 of the Global Charcoal Database is now available for regional fire history reconstructions, data exploration, hypothesis testing, and evaluation of coupled climate–vegetation–fire model simulations. The charcoal database contains over 400 radiocarbon-dated records that document changes in charcoal abundance during the Late Quaternary. The aim of this public database is to stimulate cross-disciplinary research in fire sciences targeted at an increased understanding of the controls and impacts of natural and anthropogenic fire regimes on centennial-to-orbital timescales. We describe here the data standardization techniques for comparing multiple types of sedimentary charcoal records. Version 1 of the Global Charcoal Database has been used to characterize global and regional patterns in fire activity since the last glacial maximum. Recent studies using the charcoal database have explored the relation between climate and fire during periods of rapid climate change, including evidence of fire activity during the Younger Dryas Chronozone, and during the past two millennia.

The potential of 1 h refractivity changes from an operational C-band magnetron-based radar for numerical weather prediction validation and data assimilation

Refractivity changes (ΔN) derived from radar ground clutter returns serve as a proxy for near-surface humidity changes (1 N unit ≡ 1% relative humidity at 20 °C). Previous studies have indicated that better humidity observations should improve forecasts of convection initiation. A preliminary assessment of the potential of refractivity retrievals from an operational magnetron-based C-band radar is presented. The increased phase noise at shorter wavelengths, exacerbated by the unknown position of the target within the 300 m gate, make it difficult to obtain absolute refractivity values, so we consider the information in 1 h changes. These have been derived to a range of 30 km with a spatial resolution of ∼4 km; the consistency of the individual estimates (within each 4 km × 4 km area) indicates that ΔN errors are about 1 N unit, in agreement with in situ observations. Measurements from an instrumented tower on summer days show that the 1 h refractivity changes up to a height of 100 m remain well correlated with near-surface values. The analysis of refractivity as represented in the operational Met Office Unified Model at 1.5, 4 and 12 km grid lengths demonstrates that, as model resolution increases, the spatial scales of the refractivity structures improve. It is shown that the magnitude of refractivity changes is progressively underestimated at larger grid lengths during summer. However, the daily time series of 1 h refractivity changes reveal that, whereas the radar-derived values are very well correlated with the in situ observations, the high-resolution model runs have little skill in getting the right values of ΔN in the right place at the right time. This suggests that the assimilation of these radar refractivity observations could benefit forecasts of the initiation of convection.

Provenance: The Bridge Between Experiments and Data

Current scientific applications are often structured as workflows and rely on workflow systems to compile abstract experiment designs into enactable workflows that utilise the best available resources. The automation of this step and of the workflow enactment, hides the details of how results have been produced. Knowing how compilation and enactment occurred allows results to be reconnected with the experiment design. We investigate how provenance helps scientists to connect their results with the actual execution that took place, their original experiment and its inputs and parameters.

Análise de ecossistemas aquáticos através do método input-output : estudo de caso lagoa Itapeva (sistema lagunar costeiro do Rio Grande do Sul)

A enorme complexidade dos sistemas ecológicos tem sido uma grande barreira para a compreensão e o gerenciamento da problemática ambiental. Neste sentido a modelagem matemática é uma valiosa ferramenta, devido a sua capacidade de organizar as informações disponíveis sobre estes sistemas e de fazer previsões a seu respeito para diferentes condições. Desta forma a análise de sistemas naturais vem sendo abordada de diferentes maneiras, sendo que nas últimas décadas a teoria de ecossistemas expandiu-se e ramos específicos, que permitem seguir e predizer a evolução de ecossistemas, foram formulados. Um destes enfoques, conhecido como análise do fluxo de insumo-produto, pode ser utilizado para explicar o funcionamento e estrutura dos subsistemas de um ecossistema através da descrição dos fluxos de matéria ou energia. A análise do fluxo de insumo-produto pode ser representada através de dois modelos: o modelo determinístico ou o modelo estocástico, tendo sua origem em estudos de caso com o objetivo de analisar a econômica norte-americana, sendo uma extensão prática da teoria clássica de interdependência geral. Este trabalho faz uma abordagem sintética da evolução desta análise, avaliando dados teóricos e principalmente dados referentes à Lagoa Itapeva. A análise de input-output (determinística e estocástica) com o propósito de obter informações no que diz respeito aos fluxos (matéria e energia), é bastante simples; sendo que os modelos determinísticos se prestam melhor para traçar um panorama global e para obter projeções para as variáveis já os modelos estocásticos são mais complexos, mas provêem uma descrição mais acurada. Na Lagoa Itapeva os processos determinísticos demonstraram um baixo índice de ciclagem do carbono entre os três compartimentos em estudo e o fluxo preferencial na normalização corresponde ao compartimento dos produtores primários, isto decorre de não existir loop nos compartimentos em estudo e também não existir fluxos em dois sentidos. Em relação à avaliação estocástica foram observadas uma baixa relação no sentido espacial superfície-meio-fundo da lagoa, e uma boa distribuição espacial norte-centro-sul. Quanto à distribuição temporal, foi constatada uma baixa concordância entre os dados analisados e os dados reais quanto das análises realizadas em intervalos de tempo pequeno (horas) e uma boa concordância nas medidas feitas quando o intervalo foi significativo (meses). Também em relação à Lagoa Itapeva, foi verificado nas análises estocásticas, utilizando-se operadores espaciais, que como a dinâmica biológica nem sempre é linear, os organismos não podem acompanhar imediatamente e perfeitamente as mudanças do ambiente, resultando em tempos de residência de matéria significativamente baixo. Além da análise dos fluxos ligados a este ecossistema lagunar, foram desenvolvidas técnicas de correção e adaptação de dados referentes à amostragem ocorrida na Lagoa durante um ano de campanha. Assim, propõe-se uma nova perspectiva no uso desta metodologia de forma simples e de fácil manipulação matemática.