Two topographic maps for data visualisation

We review a new form of self-organizing map which is based on a nonlinear projection of latent points into data space, identical to that performed in the Generative Topographic Mapping (GTM) [Bishop et al. (1997) Neurl Comput 10(1): 215–234]. But whereas the GTM is an extension of a mixture of experts, our new model is an extension of a product of experts [Hinton (2000) Technical report GCNU TR 2000-004, Gatsby Computational Neuroscience Unit, University College, London]. We show visualisation results on some real data sets and compare with the GTM. We then introduce a second mapping based on harmonic averages and show that it too creates a topographic mapping of the data. We compare these mappings on real and artificial data sets. Responsible editor: Soumen Chakrabarti.     

Effects of vesnarinone, a novel orally active inotropic agent with an immunosuppressive action, on experimental cardiac transplantation in rats

BACKGROUND: Vesnarinone (VES) has been used for treatment of patients with congestive heart failure. In addition to inotropic effects, it seems to have immunosuppressive action. We tested the hypothesis that VES suppresses graft rejection, inotropic dysfunction caused by early rejection, and chronic coronary obstruction in a heterotopic rat cardiac transplantation model. METHODS: (1) To study acute rejection, hearts from Lewis-Brown Norway (LBN) rats were transplanted into Lewis rats, which were treated with or without VES (50 or 100 mg/kg/day orally). (2) In a functional study, LBN hearts with or without VES (100 mg/kg/ day) were isolated and perfused on day 3 after transplantation to assess inotropic response to isoproterenol (3 x 10(-8) M). (3) To study chronic rejection, Lewis hearts were transplanted into Fisher 344 rats, which were treated with or without VES (50 mg/kg/day) for 90 days. Coronary obstructive disease was assessed by morphometric analysis. There were five to six animals in each group. RESULTS: (1) VES (100 mg/kg/day) prolonged LBN heart survival (11.7 +/- 0.7 vs. 9.6 +/- 0.7 days in control; P < 0.05). (2) Left ventricular developed pressure was depressed in transplanted hearts regardless of VES treatment (84 +/- 12, 90 +/- 8 vs. 144 +/- 16 mmHg in untransplanted hearts; P < 0.01). The developed pressure after administration of isoproterenol in VES-treated hearts (184 +/- 20 mmHg) was higher than transplanted hearts without VES (118 +/- 16 mmHg; P < 0.05), and similar to untransplanted hearts (203 +/- 27 mmHg; P = NS). (3) Transplanted hearts treated with or without VES showed similar grades of rejection (2.0 +/- 0.3 vs. 2.6 +/- 0.2; P = NS), intimal area (6,996 +/- 3,186 vs. 13,441 +/- 5,165 microns2; NS), and coronary luminal obstruction (45 +/- 16% vs. 67 +/- 14%; NS). CONCLUSIONS: VES produces mild prolongation in survival of rat heart grafts, but has no significant effect on chronic graft atherosclerosis. VES preserves the positive inotropic effects of isoproterenol that are otherwise deteriorated by early acute rejection.     

Phase I trial of weekly scheduling and pharmacokinetics of titanocene dichloride in patients with advanced cancer

PURPOSE: To determine the maximum-tolerated dose (MTD) and the dose-limiting toxicities (DLTs) of a weekly schedule of titanocene dichloride (TD) and to define the pharmacokinetics of titanium in plasma and urine. PATIENTS AND METHODS: Twenty patients with a median age of 58 years received 83 courses of TD. TD was given as 1-hour infusion at escalating doses from 70 to 185 mg/m2/wk. Pharmacokinetic analysis was performed in eight patients for total plasma titanium (TPTi) and in three patients for ultrafiltrable titanium (UFTi). RESULTS: At the fifth dose level (185 mg/m2/wk), a variety of DLTs were seen in five patients: fatigue in three, bilirubinemia in one, and hypokalemia in two. A further six patients were treated at 140 mg/m2; only one had dose-limiting creatinine elevation and this dose was therefore defined as the MTD. No myelosuppression or alopecia were observed. One patient with adenocarcinoma of unknown primary had a minor response. Pharmacokinetic analysis showed that TPTi maximum concentration (Cmax) values were linear with dose and elimination of TPTi was triphasic with a long terminal half-life (t1/2; median, 165 hours; range, 89 to 592). Between 7% and 24.3% of the total of administered titanium was eliminated in urine over the first 24 hours. In contrast, UFTi elimination was described by a one-compartment model with a t1/2 of 0.41 hours; peak levels of UFTi were 5.2% +/- 2.5% those of TPTi. CONCLUSION: The MTD of TD given on a weekly schedule is 140 mg/m2, with cumulative, but reversible creatinine and bilirubin elevation being the DLTs.     

A model to predict land susceptibility to wind erosion in western Queensland,Australia

This paper describes the development and validation of the Australian Land Erodibility Model (AUSLEM), designed to predict land susceptibility to wind erosion in western Queensland, Australia. The model operates at a 5 × 5 km spatial resolution on a daily time-step with inputs of grass and tree cover, soil moisture, soil texture and surficial stone cover. The system was implemented to predict land erodibility, i.e. susceptibility to wind erosion, for the period 1980–1990. Model performance was evaluated using cross-correlation analyses to compare trajectories of mean annual land erodibility at selected locations with trends in wind speed and observational records of dust events and a Dust Storm Index (DSI). The validation was conducted at four spatial length scales from 25 to 150 km using windows to represent potential dust source areas centered on and positioned around eight meteorological stations within the study area. The predicted land erodibility had strong correlations with dust-event frequencies at half of the stations. Poor correlations at the other stations were linked to the inability of the model to account for temporal changes in soil erodibility, and comparing trends in the land erodibility of regions with dust events whose source areas lie outside the regions of interest. The model agreement with dust-event frequency trends was found to vary across spatial scales and was highly dependent on land type characteristics around the stations and on the types of dust events used for validation.     

A scale-invariant feature map

We use a simple network which uses negative feedback of activation and simple Hebbian learning to self-organize in such a way as to produce a hierarchical classification network. By adding neighbourhood relations to its learning rule, we create a feature map which has the property of retaining the angular properties of the input data, i.e. vectors of similar directions are classified similarly regardless of their magnitude. We use neither re-normalization of weights nor data preprocessing in the network despite using competition based on maximizing the neuron's activation.     

A Family of Canonical Correlation Networks

We have previously introduced [2, 5] a neural implementation of Canonical Correlation Analysis (CCA). In this paper, we re-derive the learning method from a probabilistic perspective and then show that similar networks can be derived based on the pioneering work of Becker [1] if certain simplifying assumptions are made. Becker has shown that her network is able to find depth information from an abstraction of random dot stereogram data and so finally we note the similarity of the derived methods with those of Stone [3] which was used with a smooth stereo disparity data set to extract depth information.     

Topology-controlled volume rendering

Topology provides a foundation for the development of mathematically sound tools for processing and exploration of scalar fields. Existing topology-based methods can be used to identify interesting features in volumetric data sets, to find seed sets for accelerated isosurface extraction, or to treat individual connected components as distinct entities for isosurfacing or interval volume rendering. We describe a framework for direct volume rendering based on segmenting a volume into regions of equivalent contour topology and applying separate transfer functions to each region. Each region corresponds to a branch of a hierarchical contour tree decomposition, and a separate transfer function can be defined for it. The novel contributions of our work are: 1) a volume rendering framework and interface where a unique transfer function can be assigned to each subvolume corresponding to a branch of the contour tree, 2) a runtime method for adjusting data values to reflect contour tree simplifications, 3) an efficient way of mapping a spatial location into the contour tree to determine the applicable transfer function, and 4) an algorithm for hardware-accelerated direct volume rendering that visualizes the contour tree-based segmentation at interactive frame rates using graphics processing units (GPUs) that support loops and conditional branches in fragment programs     

Estimation of the costs of acute gastrointestinal illness in British Columbia, Canada

The costs associated with gastrointestinal infection (GI) in the province of British Columbia, Canada, were estimated using data from a population-based survey in three health service delivery areas, namely Vancouver, East Kootenay and Northern Interior. The number of cases of disease, consequent expenditure of resources and associated economic costs were modeled as probability distributions in a stochastic model. Using 2004 prices, the estimated mean annual cost per capita of gastrointestinal infection was CAN$128.61 (euro207.96), with a mean annual cost per case of CAN$1,342.57 (euro2,170.99). The mean estimate of the overall economic burden to British Columbia was CAN$514.2 million (euro831.5 million) (95% CFI CAN$161.0 million to CAN$5.8 billion; euro260.3 million to euro9.38 billion). The major element of this cost was the loss of productivity associated with time away from paid employment by both the sick and their caregivers. Sensitivity analysis suggested that the uncertainty associated with the base model assumptions did not significantly affect the estimates. The results are comparable to those obtained in an earlier study using a similar analytical framework and data from the city of Hamilton, Ontario, Canada.     

Integrated Computational Materials Engineering (ICME) Approach to Design of Novel Microstructures for Ti-Alloys

In this overview, we present integrated CAPHAD and phase-field modeling with critical experiments to explore a newly discovered, nonconventional, solid–solid phase transformation pathway based on the so-called pseudo-spinodal mechanism. We show that this new transformation pathway offers a new design strategy for Ti alloys with extremely fine and uniform α + β microstructures that could potentially have highly attractive balances of mechanical properties. To broaden the processing window for such a mechanism to operate, we also explore a different nonconventional transformation pathway that involves precursory phase separation. In addition, the variant selection process during the β → α transformation leading to macrozones is investigated and the results could shed light on how to control processing conditions to avoid or reduce microtexture at both the individual β grain level and the overall polycrystalline sample level.     

Characterization of sulfate-reducing granular sludge in the SANI process

Hong Kong practices seawater toilet flushing covering 80% of the population. A sulfur cycle-based biological nitrogen removal process, the Sulfate reduction, Autotrophic denitrification and Nitrification Integrated (SANI^®) process, had been developed to close the loop between the hybrid water supply and saline sewage treatment. To enhance this novel process, granulation of a Sulfate-Reducing Up-flow Sludge Bed (SRUSB) reactor has recently been conducted for organic removal and provision of electron donors (sulfide) for subsequent autotrophic denitrification, with a view to minimizing footprint and maximizing operation resilience. This further study was focused on the biological and physicochemical characteristics of the granular sulfate-reducing sludge. A lab-scale SRUSB reactor seeded with anaerobic digester sludge was operated with synthetic saline sewage for 368 days. At 1 h nominal hydraulic retention time (HRT) and 6.4 kg COD/m³-d organic loading rate, the SRUSB reactor achieved 90% COD and 75% sulfate removal efficiencies. Granular sludge was observed within 30 days, and became stable after 4 months of operation with diameters of 400–500 μm, SVI₅ of 30 ml/g, and extracellular polymeric substances of 23 mg carbohydrate/g VSS. Fluorescence in situ hybridization (FISH) analysis revealed that the granules were enriched with abundant sulfate-reducing bacteria (SRB) as compared with the seeding sludge. Pyrosequencing analysis of the 16S rRNA gene in the sulfate-reducing granules on day 90 indicated that the microbial community consisted of a diverse SRB genera, namely Desulfobulbus (18.1%), Desulfobacter (13.6%), Desulfomicrobium (5.6%), Desulfosarcina (0.73%) and Desulfovibrio (0.6%), accounting for 38.6% of total operational taxonomic units at genera level, with no methanogens detected. The microbial population and physicochemical properties of the granules well explained the excellent performance of the granular SRUSB reactor.