The development of automated solutions to pattern recognition problems is important in many areas of scientific research and human endeavour. This paper describes the implementation of the Pandora ...software development kit, which aids the process of designing, implementing and running pattern recognition algorithms. The Pandora Application Programming Interfaces ensure simple specification of the building-blocks defining a pattern recognition problem. The logic required to solve the problem is implemented in algorithms. The algorithms request operations to create or modify data structures and the operations are performed by the Pandora framework. This design promotes an approach using many decoupled algorithms, each addressing specific topologies. Details of algorithms addressing two pattern recognition problems in High Energy Physics are presented: reconstruction of events at a high-energy
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linear collider and reconstruction of cosmic ray or neutrino events in a liquid argon time projection chamber.
Particle flow calorimetry and the PandoraPFA algorithm Thomson, M.A.
Nuclear instruments & methods in physics research. Section A, Accelerators, spectrometers, detectors and associated equipment,
11/2009, Letnik:
611, Številka:
1
Journal Article
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Odprti dostop
The Particle Flow (PFlow) approach to calorimetry promises to deliver unprecedented jet energy resolution for experiments at future high energy colliders such as the proposed International Linear ...Collider (ILC). This paper describes the PandoraPFA particle flow algorithm which is then used to perform the first systematic study of the potential of high granularity PFlow calorimetry. For simulated events in the ILD detector concept, a jet energy resolution of
σ
E
/
E
≲
3.8
%
is achieved for 40–400
GeV jets. This result, which demonstrates that high granularity PFlow calorimetry can meet the challenging ILC jet energy resolution goals, does not depend strongly on the details of the Monte Carlo modelling of hadronic showers. The PandoraPFA algorithm is also used to investigate the general features of a collider detector optimised for high granularity PFlow calorimetry. Finally, a first study of the potential of high granularity PFlow calorimetry at a multi-TeV lepton collider, such as CLIC, is presented.
Changes in temperature, CO2, and precipitation under the scenarios of climate change for the next 30 yr present a challenge to crop production. This review focuses on the impact of temperature, CO2, ...and ozone on agronomic crops and the implications for crop production. Understanding these implications for agricultural crops is critical for developing cropping systems resilient to stresses induced by climate change. There is variation among crops in their response to CO2, temperature, and precipitation changes and, with the regional differences in predicted climate, a situation is created in which the responses will be further complicated. For example, the temperature effects on soybean Glycine max (L.) Merr. could potentially cause yield reductions of 2.4% in the South but an increase of 1.7% in the Midwest. The frequency of years when temperatures exceed thresholds for damage during critical growth stages is likely to increase for some crops and regions. The increase in CO2 contributes significantly to enhanced plant growth and improved water use efficiency (WUE); however, there may be a downscaling of these positive impacts due to higher temperatures plants will experience during their growth cycle. A challenge is to understand the interactions of the changing climatic parameters because of the interactions among temperature, CO2, and precipitation on plant growth and development and also on the biotic stresses of weeds, insects, and diseases. Agronomists will have to consider the variations in temperature and precipitation as part of the production system if they are to ensure the food security required by an ever increasing population.
Streptomyces coelicolor is a representative of the group of soil-dwelling, filamentous bacteria responsible for producing most natural antibiotics used in human and veterinary medicine. Here we ...report the 8,667,507 base pair linear chromosome of this organism, containing the largest number of genes so far discovered in a bacterium. The 7,825 predicted genes include more than 20 clusters coding for known or predicted secondary metabolites. The genome contains an unprecedented proportion of regulatory genes, predominantly those likely to be involved in responses to external stimuli and stresses, and many duplicated gene sets that may represent 'tissue-specific' isoforms operating in different phases of colonial development, a unique situation for a bacterium. An ancient synteny was revealed between the central 'core' of the chromosome and the whole chromosome of pathogens Mycobacterium tuberculosis and Corynebacterium diphtheriae. The genome sequence will greatly increase our understanding of microbial life in the soil as well as aiding the generation of new drug candidates by genetic engineering.
Identifying the type and strength of interactions between local anthropogenic and other stressors can help to set achievable management targets for degraded marine ecosystems and support their ...resilience by identifying local actions. We undertook a meta‐analysis, using data from 118 studies to test the hypothesis that ongoing global declines in the dominant habitat along temperate rocky coastlines, forests of canopy‐forming algae and/or their replacement by mat‐forming algae are driven by the nonadditive interactions between local anthropogenic stressors that can be addressed through management actions (fishing, heavy metal pollution, nutrient enrichment and high sediment loads) and other stressors (presence of competitors or grazers, removal of canopy algae, limiting or excessive light, low or high salinity, increasing temperature, high wave exposure and high UV or CO₂), not as easily amenable to management actions. In general, the cumulative effects of local anthropogenic and other stressors had negative effects on the growth and survival of canopy‐forming algae. Conversely, the growth or survival of mat‐forming algae was either unaffected or significantly enhanced by the same pairs of stressors. Contrary to our predictions, the majority of interactions between stressors were additive. There were however synergistic interactions between nutrient enrichment and heavy metals, the presence of competitors, low light and increasing temperature, leading to amplified negative effects on canopy‐forming algae. There were also synergistic interactions between nutrient enrichment and increasing CO₂ and temperature leading to amplified positive effects on mat‐forming algae. Our review of the current literature shows that management of nutrient levels, rather than fishing, heavy metal pollution or high sediment loads, would provide the greatest opportunity for preventing the shift from canopy to mat‐forming algae, particularly in enclosed bays or estuaries because of the higher prevalence of synergistic interactions between nutrient enrichment with other local and global stressors, and as such it should be prioritized.
ABSTRACT
We present an overview and description of the e-MERGE Survey (e-MERLIN Galaxy Evolution Survey) Data Release 1 (DR1), a large program of high-resolution 1.5-GHz radio observations of the ...GOODS-N field comprising ∼140 h of observations with enhanced-Multi-Element Remotely Linked Interferometer Network (e-MERLIN) and ∼40 h with the Very Large Array (VLA). We combine the long baselines of e-MERLIN (providing high angular resolution) with the relatively closely packed antennas of the VLA (providing excellent surface brightness sensitivity) to produce a deep 1.5-GHz radio survey with the sensitivity (${\sim}1.5\, \mu$ Jy beam−1), angular resolution (0.2–0.7 arcsec) and field-of-view (∼15 × 15 arcmin2) to detect and spatially resolve star-forming galaxies and active galactic nucleus (AGN) at $z$ ≳ 1. The goal of e-MERGE is to provide new constraints on the deep, sub-arcsecond radio sky which will be surveyed by SKA1-mid. In this initial publication, we discuss our data analysis techniques, including steps taken to model in-beam source variability over an ∼20-yr baseline and the development of new point spread function/primary beam models to seamlessly merge e-MERLIN and VLA data in the uv plane. We present early science results, including measurements of the luminosities and/or linear sizes of ∼500 galaxies selected at 1.5 GHz. In combination with deep Hubble Space Telescope observations, we measure a mean radio-to-optical size ratio of re-MERGE/rHST ∼ 1.02 ± 0.03, suggesting that in most high-redshift galaxies, the ∼GHz continuum emission traces the stellar light seen in optical imaging. This is the first in a series of papers that will explore the ∼kpc-scale radio properties of star-forming galaxies and AGN in the GOODS-N field observed by e-MERGE DR1.
We present a multi-wavelength analysis of 52 submillimeter galaxies (SMGs), identified using ALMA 870 m continuum imaging in a pilot program to precisely locate bright SCUBA-2-selected submillimeter ...sources in the UKIDSS Ultra Deep Survey (UDS) field. Using the available deep (especially near-infrared) panoramic imaging of the UDS field at optical-to-radio wavelengths we characterize key properties of the SMG population. The median photometric redshift of the bright ALMA/SCUBA-2 UDS (AS2UDS) SMGs that are detected in a sufficient number of wavebands to derive a robust photometric redshift is z = 2.65 0.13. However, similar to previous studies, 27% of the SMGs are too faint at optical-to-near-infrared wavelengths to derive a reliable photometric redshift. Assuming that these SMGs lie at z 3 raises the median redshift of the full sample to z = 2.9 0.2. A subset of 23 unlensed, bright AS2UDS SMGs have sizes measured from resolved imaging of their rest-frame far-infrared emission. We show that the extent and luminosity of the far-infrared emission are consistent with the dust emission arising from regions that are, on average, optically thick at a wavelength of (1 dispersion of 55-90 m). Using the dust masses derived from our optically thick spectral energy distribution models, we determine that these galaxies have a median hydrogen column density of NH = 9.8 × 1023 cm−2, or a corresponding median V-band obscuration of Av = 540 mag, averaged along the line of sight to the source of their rest-frame ∼200 m emission. We discuss the implications of this extreme attenuation by dust for the multi-wavelength study of dusty starbursts and reddening-sensitive tracers of star formation.
Juvenile idiopathic arthritis (JIA) is a heterogeneous group of diseases, comprising seven categories. Genetic data could potentially be used to help redefine JIA categories and improve the current ...classification system. The human leucocyte antigen (HLA) region is strongly associated with JIA. Fine-mapping of the region was performed to look for similarities and differences in HLA associations between the JIA categories and define correspondences with adult inflammatory arthritides.
Dense genotype data from the HLA region, from the Immunochip array for 5043 JIA cases and 14 390 controls, were used to impute single-nucleotide polymorphisms, HLA classical alleles and amino acids. Bivariate analysis was performed to investigate genetic correlation between the JIA categories. Conditional analysis was used to identify additional effects within the region. Comparison of the findings with those in adult inflammatory arthritic diseases was performed.
We identified category-specific associations and have demonstrated for the first time that rheumatoid factor (RF)-negative polyarticular JIA and oligoarticular JIA are genetically similar in their HLA associations. We also observe that each JIA category potentially has an adult counterpart. The RF-positive polyarthritis association at HLA-DRB1 amino acid at position 13 mirrors the association in adult seropositive rheumatoid arthritis (RA). Interestingly, the combined oligoarthritis and RF-negative polyarthritis dataset shares the same association with adult seronegative RA.
The findings suggest the value of using genetic data in helping to classify the categories of this heterogeneous disease. Mapping JIA categories to adult counterparts could enable shared knowledge of disease pathogenesis and aetiology and facilitate transition from paediatric to adult services.
We exploit Atacama Large Millimeter Array (ALMA) 870 μm observations of sub-millimetre sources in the Extended Chandra Deep Field South to investigate the far-infrared properties of high-redshift ...sub-millimetre galaxies (SMGs). Using the precisely located 870 μm ALMA positions of 99 SMGs, together with 24μm and radio imaging, we deblend the Herschel/SPIRE imaging to extract their far-infrared fluxes and colours. The median redshifts for ALMA LESS (ALESS) SMGs which are detected in at least two SPIRE bands increases with wavelength of the peak in their spectral energy distributions (SEDs), with z = 2.3 ± 0.2, 2.5 ± 0.3 and 3.5 ± 0.5 for the 250, 350 and 500 μm peakers, respectively. 34 ALESS SMGs do not have a >3σ counterpart at 250, 350 or 500 μm. These galaxies have a median photometric redshift derived from the rest-frame UV–mid-infrared SEDs of z = 3.3 ± 0.5, which is higher than the full ALESS SMG sample; z = 2.5 ± 0.2. We estimate the far-infrared luminosities and characteristic dust temperature of each SMG, deriving L
IR = (3.0 ± 0.3) × 1012 L⊙ (SFR = 300 ± 30 M⊙ yr−1) and T
d = 32 ± 1 K. The characteristic dust temperature of these high-redshift SMGs is ΔT
d = 3–5 K lower than comparably luminous galaxies at z = 0, reflecting the more extended star formation in these systems. We show that the contribution of S
870 μm ≥ 1 mJy SMGs to the cosmic star formation budget is 20 per cent of the total over the redshift range z ∼ 1–4. Adopting an appropriate gas-to-dust ratio, we estimate a typical molecular mass of the ALESS SMGs of
$M_{\rm H_2}$
= (4.2 ± 0.4) × 1010 M⊙. Finally, we show that SMGs with S
870 μm > 1 mJy (L
IR ≳ 1012 L⊙) contain ∼ 10 per cent of the z ∼ 2 volume-averaged H2 mass density.
We report the first results of AS2UDS, an 870 m continuum survey with the Atacama Large Millimeter/Submillimeter Array (ALMA) of a total area of ∼50 arcmin2 comprising a complete sample of 716 ...submillimeter sources drawn from the SCUBA-2 Cosmology Legacy Survey (S2CLS) map of the UKIDSS/UDS field. The S2CLS parent sample covers a 0.96 degree2 field at 850 = 0.90 0.05 mJy beam−1. Our deep, high-resolution ALMA observations with 870 ∼ 0.25 mJy and a 0 15-0 30 FWHM synthesized beam, provide precise locations for 695 submillimeter galaxies (SMGs) responsible for the submillimeter emission corresponding to 606 sources in the low-resolution, single-dish map. We measure the number counts of SMGs brighter than S870 ≥ 4 mJy, free from the effects of blending and show that the normalization of the counts falls by 28% 2% in comparison with the SCUBA-2 published counts, but that the shape remains unchanged. We determine that 44 − 14 + 16 % of the brighter single-dish sources with S850 ≥ 9 mJy consist of a blend of two or more ALMA-detectable SMGs brighter than S870 ∼ 1 mJy (corresponding to a galaxy with a total-infrared luminosity of LIR 1012 L ), in comparison with 28% 2% for the single-dish sources at S850 ≥ 5 mJy. Using the 46 single-dish submillimeter sources that contain two or more ALMA-detected SMGs with photometric redshifts, we show that there is a significant statistical excess of pairs of SMGs with similar redshifts (<1% probability of occurring by chance), suggesting that at least 30% of these blends arise from physically associated pairs of SMGs.
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