A framework for automatically generating optimized digital designs from C-language loops

Reconfigurable computing has the potential for providing significant performance increases to a number of computing applications. However, realizing these benefits requires digital design experience and knowledge of hardware description languages (HDLs). While a number of tools have focused on translation of high-level languages (HLLs) to HDLs, the tools do not always create optimized digital designs that are competitive with hand-coded solutions. This work describes an automatic optimization in the C-to-HDL transformation that reorganizes operations between pipeline stages in order to reduce critical path lengths. The effects of this optimization are examined on the MD5, SHA-1, and Smith-Waterman algorithms. Results show that the optimization results in performance gains of 13%-37% and that the automatically-generated implementations perform comparably to hand-coded implementations

A framework for automatically generating optimized digital designs from C-language loops

Reconfigurable computing has the potential for providing significant performance increases to a number of computing applications. However, realizing these benefits requires digital design experience and knowledge of hardware description languages (HDLs). While a number of tools have focused on translation of high-level languages (HLLs) to HDLs, the tools do not always create optimized digital designs that are competitive with hand-coded solutions. This work describes an automatic optimization in the C-to-HDL transformation that reorganizes operations between pipeline stages in order to reduce critical path lengths. The effects of this optimization are examined on the MD5, SHA-1, and Smith-Waterman algorithms. Results show that the optimization results in performance gains of 13%-37% and that the automatically-generated implementations perform comparably to hand-coded implementations

Use of stormwater impoundments near airports by birds recognizedas hazardous to aviation safety

Design of privately-owned stormwater impoundments within or near airport siting criteria has received little attention with regard to potential hazards posed to aviation safety. In particular, minimizing use of these impoundments by bird species recognized as hazardous to aviation poses an important challenge. Emergent vegetation, shoreline irregularity, and proximity of other water resources are linked to avian richness and diversity within wetlands, as well as bird use of stormwater impoundments on airports. We predicted also that impoundments with bank slope \u3e20% and those functioning as detention facilities, where water is periodically drawn down, would negatively influence use by birds; and that shoreline-vegetation diversity and local land-use diversity would be positively correlated with use. Over 104 weeks(March 2008 to March 2010), we surveyed bird use of 40 stormwater impoundments in the Auburn-Opelika Metropolitan area, Lee County, AL, USA, typical of privately-owned facilities located within or near airport siting criteria. We quantified local-scale and site-specific parameters possibly affecting bird use and evaluated fit for 17 a priori models relative to detection of 10 individual avian foraging guilds recognized as hazardous to aviation safety. Relative likelihoods of best-approximating models (Akaike weights) ranged from approximately 0.42 to 0.92. Based on best-approximating models for at least five of the 10 guilds, we suggest that broad reduction in use of stormwater impoundments, located within or near airport siting criteria, by bird species hazardous to aviation can be achieved via designs which minimize perimeter, surface area, and the ratio of open water to emergent vegetation

A Guide to the threatened and endangered vascular plants of the Lake Mead National Recreation Area

This illustrated guide was prepared to provide the botanical community, land managers, and other interested persons with a reference that describes and locates the twelve plant taxa currently being considered by the Fish and Wildlife Service for threatened or endangered status in or around the Lake Mead National Recreation Area. The guide is intended to assist managers of government agencies in determining the presence of these species and in defining management programs for their protection. The guide should be consulted prior to any construction project. If a potential conflict is identified, an onsite evaluation should be conducted early in the planning process. This publication is also presented as an effort to stimulate interest in learnin

Use of stormwater impoundments near airports by birds recognizedas hazardous to aviation safety

Design of privately-owned stormwater impoundments within or near airport siting criteria has received little attention with regard to potential hazards posed to aviation safety. In particular, minimizing use of these impoundments by bird species recognized as hazardous to aviation poses an important challenge. Emergent vegetation, shoreline irregularity, and proximity of other water resources are linked to avian richness and diversity within wetlands, as well as bird use of stormwater impoundments on airports. We predicted also that impoundments with bank slope \u3e20% and those functioning as detention facilities, where water is periodically drawn down, would negatively influence use by birds; and that shoreline-vegetation diversity and local land-use diversity would be positively correlated with use. Over 104 weeks(March 2008 to March 2010), we surveyed bird use of 40 stormwater impoundments in the Auburn-Opelika Metropolitan area, Lee County, AL, USA, typical of privately-owned facilities located within or near airport siting criteria. We quantified local-scale and site-specific parameters possibly affecting bird use and evaluated fit for 17 a priori models relative to detection of 10 individual avian foraging guilds recognized as hazardous to aviation safety. Relative likelihoods of best-approximating models (Akaike weights) ranged from approximately 0.42 to 0.92. Based on best-approximating models for at least five of the 10 guilds, we suggest that broad reduction in use of stormwater impoundments, located within or near airport siting criteria, by bird species hazardous to aviation can be achieved via designs which minimize perimeter, surface area, and the ratio of open water to emergent vegetation

Genetic assessment of age-associated Alzheimer disease risk: Development and validation of a polygenic hazard score

Background Identifying individuals at risk for developing Alzheimer disease (AD) is of utmost importance. Although genetic studies have identified AD-associated SNPs in APOE and other genes, genetic information has not been integrated into an epidemiological framework for risk prediction. Methods and findings Using genotype data from 17,008 AD cases and 37,154 controls from the International Genomics of Alzheimer’s Project (IGAP Stage 1), we identified AD-associated SNPs (at p < 10−5 ). We then integrated these AD-associated SNPs into a Cox proportional hazard model using genotype data from a subset of 6,409 AD patients and 9,386 older controls from Phase 1 of the Alzheimer’s Disease Genetics Consortium (ADGC), providing a polygenic hazard score (PHS) for each participant. By combining population-based incidence rates and the genotype-derived PHS for each individual, we derived estimates of instantaneous risk for developing AD, based on genotype and age, and tested replication in multiple independent cohorts (ADGC Phase 2, National Institute on Aging Alzheimer’s Disease Center [NIA ADC], and Alzheimer’s Disease Neuroimaging Initiative [ADNI], total n = 20,680). Within the ADGC Phase 1 cohort, individuals in the highest PHS quartile developed AD at a considerably lower age and had the highest yearly AD incidence rate. Among APOE ε3/3 individuals, the PHS modified expected age of AD onset by more than 10 y between the lowest and highest deciles (hazard ratio 3.34, 95% CI 2.62–4.24, p = 1.0 × 10−22). In independent cohorts, the PHS strongly predicted empirical age of AD onset (ADGC Phase 2, r = 0.90, p = 1.1 × 10−26) and longitudinal progression from normal aging to AD (NIA ADC, Cochran–Armitage trend test, p = 1.5 × 10−10), and was associated with neuropathology (NIA ADC, Braak stage of neurofibrillary tangles, p = 3.9 × 10−6 , and Consortium to Establish a Registry for Alzheimer’s Disease score for neuritic plaques, p = 6.8 × 10−6 ) and in vivo markers of AD neurodegeneration (ADNI, volume loss within the entorhinal cortex, p = 6.3 × 10−6 , and hippocampus, p = 7.9 × 10−5 ). Additional prospective validation of these results in non-US, non-white, and prospective community-based cohorts is necessary before clinical use. Conclusions We have developed a PHS for quantifying individual differences in age-specific genetic risk for AD. Within the cohorts studied here, polygenic architecture plays an important role in modifying AD risk beyond APOE. With thorough validation, quantification of inherited genetic variation may prove useful for stratifying AD risk and as an enrichment strategy in therapeutic trials

Polygenic overlap between C-reactive protein, plasma lipids, and Alzheimer disease

Background—Epidemiological findings suggest a relationship between Alzheimer disease (AD), inflammation, and dyslipidemia, although the nature of this relationship is not well understood. We investigated whether this phenotypic association arises from a shared genetic basis. Methods and Results—Using summary statistics (P values and odds ratios) from genome-wide association studies of >200 000 individuals, we investigated overlap in single-nucleotide polymorphisms associated with clinically diagnosed AD and C-reactive protein (CRP), triglycerides, and high- and low-density lipoprotein levels. We found up to 50-fold enrichment of AD single-nucleotide polymorphisms for different levels of association with C-reactive protein, low-density lipoprotein, high-density lipoprotein, and triglyceride single-nucleotide polymorphisms using a false discovery rate threshold <0.05. By conditioning on polymorphisms associated with the 4 phenotypes, we identified 55 loci associated with increased AD risk. We then conducted a meta-analysis of these 55 variants across 4 independent AD cohorts (total: n=29 054 AD cases and 114 824 healthy controls) and discovered 2 genome-wide significant variants on chromosome 4 (rs13113697; closest gene, HS3ST1; odds ratio=1.07; 95% confidence interval=1.05–1.11; P=2.86×10−8) and chromosome 10 (rs7920721; closest gene, ECHDC3; odds ratio=1.07; 95% confidence interval=1.04–1.11; P=3.38×10−8). We also found that gene expression of HS3ST1 and ECHDC3 was altered in AD brains compared with control brains. Conclusions—We demonstrate genetic overlap between AD, C-reactive protein, and plasma lipids. By conditioning on the genetic association with the cardiovascular phenotypes, we identify novel AD susceptibility loci, including 2 genome-wide significant variants conferring increased risk for AD.acceptedVersio

Neonatal-Onset Multisystem Inflammatory Disease Responsive to Interleukin-1β Inhibition

Neonatal-onset multisystem inflammatory disease is characterized by fever, urticarial rash, aseptic meningitis, deforming arthropathy, hearing loss, and mental retardation. Many patients have mutations in the cold-induced autoinflammatory syndrome 1 (CIAS1) gene, encoding cryopyrin, a protein that regulates inflammation