Informing urban climate planning with high resolution data: the Hestia fossil fuel CO2 emissions for Baltimore, Maryland.

BACKGROUND: Cities contribute more than 70% of global anthropogenic carbon dioxide (CO2) emissions and are leading the effort to reduce greenhouse gas (GHG) emissions through sustainable planning and development. However, urban greenhouse gas mitigation often relies on self-reported emissions estimates that may be incomplete and unverifiable via atmospheric monitoring of GHGs. We present the Hestia Scope 1 fossil fuel CO2 (FFCO2) emissions for the city of Baltimore, Maryland-a gridded annual and hourly emissions data product for 2010 through 2015 (Hestia-Baltimore v1.6). We also compare the Hestia-Baltimore emissions to overlapping Scope 1 FFCO2 emissions in Baltimore's self-reported inventory for 2014. RESULTS: The Hestia-Baltimore emissions in 2014 totaled 1487.3 kt C (95% confidence interval of 1158.9-1944.9 kt C), with the largest emissions coming from onroad (34.2% of total city emissions), commercial (19.9%), residential (19.0%), and industrial (11.8%) sectors. Scope 1 electricity production and marine shipping were each generally less than 10% of the city's total emissions. Baltimore's self-reported Scope 1 FFCO2 emissions included onroad, natural gas consumption in buildings, and some electricity generating facilities within city limits. The self-reported Scope 1 FFCO2 total of 1182.6 kt C was similar to the sum of matching emission sectors and fuels in Hestia-Baltimore v1.6. However, 20.5% of Hestia-Baltimore's emissions were in sectors and fuels that were not included in the self-reported inventory. Petroleum use in buildings were omitted and all Scope 1 emissions from industrial point sources, marine shipping, nonroad vehicles, rail, and aircraft were categorically excluded. CONCLUSIONS: The omission of petroleum combustion in buildings and categorical exclusions of several sectors resulted in an underestimate of total Scope 1 FFCO2 emissions in Baltimore's self-reported inventory. Accurate Scope 1 FFCO2 emissions, along with Scope 2 and 3 emissions, are needed to inform effective urban policymaking for system-wide GHG mitigation. We emphasize the need for comprehensive Scope 1 emissions estimates for emissions verification and measuring progress towards Scope 1 GHG mitigation goals using atmospheric monitoring.

Fluxes of Atmospheric Greenhouse-Gases in Maryland (FLAGG-MD): Emissions of Carbon Dioxide in the Baltimore, MD-Washington, D.C. area.

To study emissions of CO2 in the Baltimore, MD-Washington, D.C. (Balt-Wash) area, an aircraft campaign was conducted in February 2015, as part of the FLAGG-MD (Fluxes of Atmospheric Greenhouse-Gases in Maryland) project. During the campaign, elevated mole fractions of CO2 were observed downwind of the urban center and local power plants. Upwind flight data and HYSPLIT (Hybrid Single Particle Lagrangian Integrated Trajectory) model analyses help account for the impact of emissions outside the Balt-Wash area. The accuracy, precision, and sensitivity of CO2 emissions estimates based on the mass balance approach were assessed for both power plants and cities. Our estimates of CO2 emissions from two local power plants agree well with their CEMS (Continuous Emissions Monitoring Systems) records. For the 16 power plant plumes captured by the aircraft, the mean percentage difference of CO2 emissions was -0.3 %. For the Balt-Wash area as a whole, the 1σ CO2 emission rate uncertainty for any individual aircraft-based mass balance approach experiment was ±38 %. Treating the mass balance experiments, which were repeated seven times within nine days, as individual quantifications of the Balt-Wash CO2 emissions, the estimation uncertainty was ±16 % (standard error of the mean at 95% CL). Our aircraft-based estimate was compared to various bottom-up fossil fuel CO2 (FFCO2) emission inventories. Based on the FLAGG-MD aircraft observations, we estimate 1.9±0.3 MtC of FFCO2 from the Balt-Wash area during the month of February 2015. The mean estimate of FFCO2 from the four bottom-up models was 2.2±0.3 MtC.

Renal trace elements in barren-ground caribou subpopulations: Temporal trends and differing effects of sex, age and season.

Caribou (Rangifer tarandus) are a culturally significant food resource for communities in northern Canada and Greenland. Many barren-ground caribou subpopulations are currently in decline, some dramatically; understanding the influence of stressors, such as toxic trace metals, is important. These contaminants enter Arctic terrestrial environments via atmospheric transport from industrialized areas and from local sources, accumulating there in the environment. Understanding how trace element concentrations interact and are influenced by caribou sex, age and season of collection is essential to evaluating trends in these elements over time and differences among subpopulations. We used path analysis to model the direct and indirect relationships between these variables in the Porcupine subpopulation and in barren-ground caribou from the Canadian Arctic and Greenland. Renal cadmium (Cd), copper (Cu) and mercury (Hg) varied significantly among subpopulations. Hg was positively correlated with Cd, Cu and selenium (Se) in female Porcupine caribou whereas Cd and Cu were negatively correlated in male Porcupine caribou. Age, season and sex influenced all three element concentrations and should be considered when comparing elements among caribou subpopulations or years. Renal Cd decreased slightly from the Canadian Western Arctic to Greenland and increased slightly over time, possibly reflecting patterns of atmospheric deposition. Renal Hg did not change significantly over time, and differences among subpopulations did not follow specific geographical patterns. Renal Cu declined over time, the changes being markedly different among subpopulations, sexes and seasons. This temporal decline is likely due to changes in diet, which could be driven by various environmental factors. Declining Cu concentrations in caribou is of concern as low levels could negatively affect reproductive success and therefore caribou at a population level. Continuing to monitor element concentrations in caribou is essential to better comprehend potential threats facing the species, and to promote food security in communities harvesting this important resource.

SpineCreator: a Graphical User Interface for the Creation of Layered Neural Models.

There is a growing requirement in computational neuroscience for tools that permit collaborative model building, model sharing, combining existing models into a larger system (multi-scale model integration), and are able to simulate models using a variety of simulation engines and hardware platforms. Layered XML model specification formats solve many of these problems, however they are difficult to write and visualise without tools. Here we describe a new graphical software tool, SpineCreator, which facilitates the creation and visualisation of layered models of point spiking neurons or rate coded neurons without requiring the need for programming. We demonstrate the tool through the reproduction and visualisation of published models and show simulation results using code generation interfaced directly into SpineCreator. As a unique application for the graphical creation of neural networks, SpineCreator represents an important step forward for neuronal modelling.

Is there a brainstem substrate for action selection?

The search for the neural substrate of vertebrate action selection has focused on structures in the forebrain and midbrain, and particularly on the group of sub-cortical nuclei known as the basal ganglia. Yet, the behavioural repertoire of decerebrate and neonatal animals suggests the existence of a relatively self-contained neural substrate for action selection in the brainstem. We propose that the medial reticular formation (mRF) is the substrate's main component and review evidence showing that the mRF's inputs, outputs and intrinsic organization are consistent with the requirements of an action-selection system. The internal architecture of the mRF is composed of interconnected neuron clusters. We present an anatomical model which suggests that the mRF's intrinsic circuitry constitutes a small-world network and extend this result to show that it may have evolved to reduce axonal wiring. Potential configurations of action representation within the internal circuitry of the mRF are then assessed by computational modelling. We present new results demonstrating that each cluster's output is most likely to represent activation of a component action; thus, coactivation of a set of these clusters would lead to the coordinated behavioural response observed in the animal. Finally, we consider the potential integration of the basal ganglia and mRF substrates for selection and suggest that they may collectively form a layered/hierarchical control system.

Implementing spiking neural networks for real-time signal-processing and control applications: a model-validated FPGA approach.

In this paper, we present two versions of a hardware processing architecture for modeling large networks of leaky-integrate-and-fire (LIF) neurons; the second version provides performance enhancing features relative to the first. Both versions of the architecture use fixed-point arithmetic and have been implemented using a single field-programmable gate array (FPGA). They have successfully simulated networks of over 1000 neurons configured using biologically plausible models of mammalian neural systems. The neuroprocessor has been designed to be employed primarily for use on mobile robotic vehicles, allowing bio-inspired neural processing models to be integrated directly into real-world control environments. When a neuroprocessor has been designed to act as part of the closed-loop system of a feedback controller, it is imperative to maintain strict real-time performance at all times, in order to maintain integrity of the control system. This resulted in the reevaluation of some of the architectural features of existing hardware for biologically plausible neural networks (NNs). In addition, we describe a development system for rapidly porting an underlying model (based on floating-point arithmetic) to the fixed-point representation of the FPGA-based neuroprocessor, thereby allowing validation of the hardware architecture. The developmental system environment facilitates the cooperation of computational neuroscientists and engineers working on embodied (robotic) systems with neural controllers, as demonstrated by our own experience on the Whiskerbot project, in which we developed models of the rodent whisker sensory system.

The brainstem reticular formation is a small-world, not scale-free, network.

Recently, it has been demonstrated that several complex systems may have simple graph-theoretic characterizations as so-called 'small-world' and 'scale-free' networks. These networks have also been applied to the gross neural connectivity between primate cortical areas and the nervous system of Caenorhabditis elegans. Here, we extend this work to a specific neural circuit of the vertebrate brain--the medial reticular formation (RF) of the brainstem--and, in doing so, we have made three key contributions. First, this work constitutes the first model (and quantitative review) of this important brain structure for over three decades. Second, we have developed the first graph-theoretic analysis of vertebrate brain connectivity at the neural network level. Third, we propose simple metrics to quantitatively assess the extent to which the networks studied are small-world or scale-free. We conclude that the medial RF is configured to create small-world (implying coherent rapid-processing capabilities), but not scale-free, type networks under assumptions which are amenable to quantitative measurement.

Testing computational hypotheses of brain systems function: a case study with the basal ganglia.

We develop a methodology for testing computational hypotheses about neural functionality articulated in models at the systems level of description. In this approach, the first step is to attempt the construction of a model of the underlying brain system which is consistent with the known anatomy and physiology, but which is also able to exhibit functional properties consistent with a putative computational hypothesis. If this is successful, the second step consists of including additional known pathways into the model and testing the new models to see whether they show an improvement in functional performance (using appropriate performance metrics). A positive outcome is taken as evidence in support of the hypothesis. A final step is to construct 'control' models by including pathways that are not consistent with biological data. In this case a performance detriment is taken as support for the hypothesis. The methodology is applied to the basal ganglia, and builds on a previously published model of this system (Gurney et al 2001 Biol. Cybern. 84 401-23) which was based on the hypothesis that the basal ganglia perform action selection. The realistically constrained models show a selection benefit, while control models show a decrement in selection ability. These results, taken together, provide further validation of our selection hypothesis of basal ganglia function.

The role of intra-thalamic and thalamocortical circuits in action selection.

We previously proposed that the basal ganglia (BG) play a crucial role in action selection. Quantitative analysis and simulation of a computational model of the intrinsic BG demonstrated that its output was consistent with this proposition. Here we build on that model by embedding it into a wider circuit containing the motor thalamocortical loop and thalamic reticular nucleus (TRN). Simulation of this extended model showed that the additions gave five main results which are desirable in a selection/switching mechanism. First, low salience actions (i.e. those with low urgency) could be selected. Second, the range of salience values over which actions could be switched between was increased. Third, the contrast between the selected and non-selected actions was enhanced via improved differentiation of outputs from the BG. Fourth, transient increases in the salience of a non-selected action were prevented from interrupting the ongoing action, unless the transient was of sufficient magnitude. Finally, the selection of the ongoing action persisted when a new closely matched salience action became active. The first result was facilitated by the thalamocortical loop; the rest were dependent on the presence of the TRN. Thus, we conclude that the results are consistent with these structures having clearly defined functions in action selection.

Information processing in dendrites II. Information theoretic complexity.

In the companion paper, we established a rationale for exploring the general principles of dendritic processing using a class of Boolean functions-the Multi-Cube Units (MCUs). Here, we use this approach to further characterise dendritic processing using ideas from information theory and studies in complexity. The starting point is a novel decomposition of a Boolean function's total mutual information (between input variables and the output). Each component of the decomposition is a mutual information measure with respect to a single input, conditioned on a subset of the remaining inputs. We call this decomposition the information spectrum and conceive of it as a re-representation of the function in the information domain. Furthermore, the information spectrum of a Boolean function may be assigned a complexity value using the approximate entropy introduced by Pincus (Pincus, S. M. (1991). Approximate entropy as a measure of system complexity. Proc. Natl. Acad. Sci. USA, 88, 2297-2301). Using Monte Carlo methods, we provide evidence that the information spectral complexity of MCUs is larger than that of any other class of Boolean function. We explain this phenomenon in terms of information flow through the 2-stage MCU architecture. Under our modelling assumptions, the implication for biological neural processing is that dendrites implement functions that have maximal information spectral complexity with respect to the class of multivariate functions from which they are drawn.

Information processing in dendrites I. Input pattern generalisation.

In this paper and its companion, we address the question as to whether there are any general principles underlying information processing in the dendritic trees of biological neurons. In order to address this question, we make two assumptions. First, the key architectural feature of dendrites responsible for many of their information processing abilities is the existence of independent sub-units performing local non-linear processing. Second, any general functional principles operate at a level of abstraction in which neurons are modelled by Boolean functions. To accommodate these assumptions, we therefore define a Boolean model neuron-the multi-cube unit (MCU)-which instantiates the notion of the discrete functional sub-unit. We then use this model unit to explore two aspects of neural functionality: generalisation (in this paper) and processing complexity (in its companion). Generalisation is dealt with from a geometric viewpoint and is quantified using a new metric-the set of order parameters. These parameters are computed for threshold logic units (TLUs), a class of random Boolean functions, and MCUs. Our interpretation of the order parameters is consistent with our knowledge of generalisation in TLUs and with the lack of generalisation in randomly chosen functions. Crucially, the order parameters for MCUs imply that these functions possess a range of generalisation behaviour. We argue that this supports the general thesis that dendrites facilitate input pattern generalisation despite any local non-linear processing within functionally isolated sub-units.

A pulsed neural network model of bursting in the basal ganglia.

We present new techniques for extending the functionality of spiking neurons which allow the incorporation of several aspects of neuron function previously confined to the domain of low level ion-channel based models. These aspects include spontaneous (or endogenous) firing, the complex interaction of multiple ion-species and the spatial distribution of synaptic contacts over the cell membrane. These ideas are applied to a neural circuit consisting of the cortex and a subset of the nuclei in the basal ganglia-the subthalamic nucleus (STN) and the external segment of the globus pallidus (GPe). This circuit has been studied extensively in vitro by Plenz and Kitai [Plenz, D., & Kitai, S. T. (1999). A basal ganglia pacemaker formed by the subthalamic nucleus and external globus pallidus. Nature, 400 677-682] whose data we use to constrain our model. With respect to this circuit, we have obtained three main results. First, that its characteristic burst firing is due to a Ca2+ current mediated mechanism. Second, that noise can assist in the generation of bursting and, paradoxically, stabilise the network behaviour under synaptic weight variations. Third, that a variety of dendritic processing is necessary in order to obtain the full range of bursting behaviour.

A computational model of action selection in the basal ganglia. I. A new functional anatomy.

We present a biologically plausible model of processing intrinsic to the basal ganglia based on the computational premise that action selection is a primary role of these central brain structures. By encoding the propensity for selecting a given action in a scalar value (the salience), it is shown that action selection may be recast in terms of signal selection. The generic properties of signal selection are defined and neural networks for this type of computation examined. A comparison between these networks and basal ganglia anatomy leads to a novel functional decomposition of the basal ganglia architecture into 'selection' and 'control' pathways. The former pathway performs the selection per se via a feedforward off-centre on-surround network. The control pathway regulates the action of the selection pathway to ensure its effective operation, and synergistically complements its dopaminergic modulation. The model contrasts with the prevailing functional segregation of basal ganglia into 'direct' and 'indirect' pathways.

A computational model of action selection in the basal ganglia. II. Analysis and simulation of behaviour.

In a companion paper a new functional architecture was proposed for the basal ganglia based on the premise that these brain structures play a central role in behavioural action selection. The current paper quantitatively describes the properties of the model using analysis and simulation. The decomposition of the basal ganglia into selection and control pathways is supported in several ways. First, several elegant features are exposed--capacity scaling, enhanced selectivity and synergistic dopamine modulation--which might be expected to exist in a well designed action selection mechanism. The discovery of these features also lends support to the computational premise of selection that underpins our model. Second, good matches between model globus pallidus external segment output and globus pallidus internal segment and substantia nigra reticulata area output, and neurophysiological data, have been found which are indicative of common architectural features in the model and biological basal ganglia. Third, the behaviour of the model as a signal selection mechanism has parallels with some kinds of action selection observed in animals under various levels of dopaminergic modulation.

Early social mixing and childhood Type 1 diabetes mellitus: a case-control study in Yorkshire, UK.

AIMS: Evidence from animal models shows an increased risk of Type 1 diabetes mellitus associated with the absence of early life exposure to pathogens. To test this 'hygiene hypothesis', patterns of social mixing and infections in the first year of life and the risk of developing autoimmune diabetes in childhood were examined. METHODS: Personal interviews were conducted with the mothers of 220 children with Type 1 diabetes (0-15 years) and 433 age/sex matched controls from a population-based case control study in Yorkshire, UK. Social mixing including attendance at daycare, and infections occurring under 1 year of age were measures of exposure. Adjusted odds ratios (OR) were derived using conditional logistic regression. RESULTS: Frequency of attendance at daycare during the 1st year of life was inversely associated with childhood diabetes (OR 0.71, 95% confidence interval 0.51-1.00, P = 0.05), a finding not explained by mother's age, level of education or maternal diabetes. Increasing numbers of children in the daycare setting and numbers of sessions attended were significantly associated with increasing protection from diabetes. The strongest effect was observed in children with diabetes diagnosed aged 0-4 years. CONCLUSIONS: Social mixing through attendance at daycare in early infancy appears to confer protection against the development of childhood diabetes. This may be mediated through exposure to infectious agent(s) as a significant dose-response effect was evident with increasing numbers of child 'contacts'. These findings suggest early infectious exposure may play a role in the development of immunoregulatory mechanisms which protect against diabetes and further work is warranted.

The basal ganglia: a vertebrate solution to the selection problem?

A selection problem arises whenever two or more competing systems seek simultaneous access to a restricted resource. Consideration of several selection architectures suggests there are significant advantages for systems which incorporate a central switching mechanism. We propose that the vertebrate basal ganglia have evolved as a centralized selection device, specialized to resolve conflicts over access to limited motor and cognitive resources. Analysis of basal ganglia functional architecture and its position within a wider anatomical framework suggests it can satisfy many of the requirements expected of an efficient selection mechanism.

Perinatal and neonatal determinants of childhood type 1 diabetes. A case-control study in Yorkshire, U.K.

OBJECTIVE: To identify environmental factors that exert their effect in the perinatal and neonatal period and influence the subsequent onset of insulin dependent (type 1) diabetes during childhood. RESEARCH DESIGN AND METHODS: A population-based case-control study of data abstracted from the hospital obstetric and neonatal records of 196 children with type 1 diabetes and 325 age- and sex-matched control subjects. Analysis of matched sets by conditional logistic regression was conducted for a range of perinatal and neonatal factors. RESULTS: A significantly raised risk was observed for illnesses in the neonatal period (OR 1.61, 95% CI 1.06-2.44), the majority of which were infections and respiratory difficulties. Exclusive breast feeding as the initial feeding method was significantly protective (OR 0.65, 95% CI 0.45-0.94). There were no significant associations with high- or low-birth weight, being firstborn or small-for-dates. All factors significant (5% level) for the entire dataset, that is, maternal age, type 1 diabetes in mothers, preeclampsia, delivery by cesarean section, neonatal illnesses, and initial breast feeding were modeled and the OR remained significant for all variables other than cesarean section. CONCLUSIONS: The findings are based on medical record data that cannot be subject to biased recall of mothers. Neonatal illnesses increased and initial breast feeding decreased the risk of childhood type 1 diabetes. Further determinants of risk are mothers with type 1 diabetes, older mothers, and preeclampsia during pregnancy.

Visual discrimination of direction changes based upon two types of angular motion.

We address the question of how the visual system analyses changes in direction. Using plaid stimuli, we define type O direction changes which entail a change in the orientations of the plaid components, and type V direction changes in which the orientations of the components remain constant, relative to the observer but their relative speeds change. Lower thresholds for discriminating type O and type V direction changes were compared. Type O thresholds for clockwise/anticlockwise direction change were very low (0.2-0.5 degree), were resistant to directional noise, and showed a low-pass relationship with drift velocity. Type V thresholds on the other hand were higher (1-5 degrees), and exhibited a bandpass relationship with drift velocity. Type O direction changes gave low thresholds at short inter-stimulus intervals (ISI) (< 160 ms) and higher thresholds (successive orientation discrimination) at long ISI (240 ms-12.8 s). Type V thresholds, on the other hand, exhibited no short-range process and performance at short ISI, was no better than for successive direction discrimination at long ISI. A two-stage rotary motion model is sufficient to explain the discrimination of type O direction changes and results rule out a model based on velocity discrimination. For type V direction changes, a two-stage mechanism is insufficient and results are consistent with a minimum of three computational stages.

Descriptive epidemiology of gastrointestinal non-Hodgkin's lymphoma in a population-based registry.

The incidence of non-Hodgkin's lymphoma (NHL), particularly at certain extranodal sites, has been demonstrated to be rising, at least in the USA, more than for any other malignancy. One of the major sites of extranodal NHL is the gastrointestinal tract, though little is known of its epidemiological characteristics. Over an 8-year period (1986 to 1993) 1069 primary gastrointestinal NHL cases were reported to the Leukaemia Research Fund Data Collection Survey which covers many parts of England and Wales. Age-standardized incidence rates of gastrointestinal NHL at all sites (0.58/10(5) per year), gastric (0.24/10(5) per year), small bowel (0.17/10(5) per year) and large bowel (0.06/1(5) per year) confirmed that the UK has the lowest rates of gastrointestinal NHL in Europe. An excess of males was observed at all ages and for all sites. Time-trend analyses showed annual increases in incidence rates for gastric (6.3%) and small bowel (5.9%) NHL although a concomitant decrease in gastrointestinal NHL of unknown site suggested that at least part of these increases had resulted from more accurate diagnoses. Overall, the incidence of gastrointestinal NHL significantly increased by 2.7% per annum and was limited to the population aged over 50 years in this series.