Extrinsic germanium Blocked Impurity Bank (BIB) detectors

Ge:Ga blocked-impurity-band (BIB) detectors with long wavelength thresholds greater than 190 microns and peak quantum efficiencies of 4 percent, at an operating temperature of 1.8 K, have been fabricated. These proof of concept devices consist of a high purity germanium blocking layer epitaxially grown on a Ga-doped Ge substrate. This demonstration of BIB behavior in germanium enables the development of far infrared detector arrays similar to the current silicon-based devices. Present efforts are focussed on improving the chemical vapor deposition process used to create the blocking layer and on the lithographic processing required to produce monolithic detector arrays in germanium. Approaches to test the impurity levels in both the blocking and active layers are considered

Wired! and Visualizing Venice: Scaling up Digital Art History

This article focuses on Visualizing Venice, an interdisciplinary, cross-cultural collaboration that engages in mapping, 3-D modeling, and multimedia representations of historical change in Venice, Italy. Through a “laboratory” approach that integrates students and faculty in multi-year research teams, we ask new questions and pursue emerging lines of inquiry about architectural monuments, their relation to the larger urban setting, and the role of sculptural and painted decoration in sacred spaces. Our practice of digital art history transforms both teaching and research and provides new means for communicating knowledge to a broad public

Sediment sources and connectivity linked to hydrologic pathways and geomorphic processes: a conceptual model to specify sediment sources and pathways through space and time

Sediment connectivity is a conceptualization for the transfer and storage of sediment among different geomorphic compartments across upland landscapes and channel networks. Sediment connectivity and dysconnectivity are linked to the water cycle and hydrologic systems with the associated multiscale interactions with climate, soil, topography, ecology, and landuse/landcover under natural variability and human intervention. We review current sediment connectivity and modeling approaches evaluating and quantifying water and sediment transfer in catchment systems. Many studies highlight the interaction between sediment and water in defining landscape connectivity, but many efforts to quantify and/or simulate sediment connectivity rely on the topographic/structural controls on sediment erosion and delivery. More recent modeling efforts integrate functional and structural connectivity to capture hydrologic properties influencing sediment delivery. Though the recent modeling development is encouraging, a comprehensive sediment connectivity framework, which integrates geomorphic and hydrologic processes across spatiotemporal scales, has not yet been accomplished. Such an effort requires understanding the hydrologic and geomorphic processes that control sediment source, storage, and transport at different spatiotemporal scales and across various geophysical conditions. We propose a path for developing this new understanding through an integrated hydrologic and sediment connectivity conceptual model that broadly categorizes dominant processes and patterns relevant to understanding sediment flux dynamics. The conceptual model describes hydrologic–sediment connectivity regimes through spatial-temporal feedback between hydrologic processes and geomorphic drivers. We propose that in combining hydrologic and sediment connectivity into a single conceptual model, patterns emerge such that catchments will exist in a single characteristic behavior at a particular instance, which would shift with space and time, and with landscape disturbances. Using the conceptual model as a “thinking” tool, we extract case studies from a multidisciplinary literature review—from hydrology, geomorphology, biogeochemistry, and watershed modeling to remote-sensing technology—that correspond to each of the dominant hydrologic–sediment connectivity regimes. Sediment and water interactions in real-world examples through various observational and modeling techniques illustrate the advancements in the spatial and temporal scales of landscape connectivity observations and simulations. The conceptual model and case studies provide a foundation for advancing the understanding and predictive capability of watershed sediment processes at multiple spatiotemporal scales. Plain language summary: Soil erosion and movement across the landscape are closely linked to rain events and flow pathways. Landscape connectivity is a way to consider how soil erosion from different parts of the landscape is connected to the streams. We explore where soil erosion occurs and how eroded soil moves across the landscape through the interaction with rainfall and drainage. The comprehensive understanding of sediment connectivity and its dependence on rainfall characteristics and watershed hydrology may help to inform the effective distribution of conservation funds and management actions to address water pollution from excess sediment

Acoustic Emission from crumpling paper

From magnetic systems to the crust of the earth, many physical systems that exibit a multiplicty of metastable states emit pulses with a broad power law distribution in energy. Digital audio recordings reveal that paper being crumpled, a system that can be easily held in hand, is such a system. Crumpling paper both using the traditional hand method and a novel cylindrical geometry uncovered a power law distribution of pulse energies spanning at least two decades: (exponent 1.3 - 1.6) Crumpling initally flat sheets into a compact ball (strong crumpling), we found little or no evidence that the energy distribution varied systematically over time or the size of the sheet. When we applied repetitive small deformations (weak crumpling) to sheets which had been previously folded along a regular grid, we found no systematic dependence on the grid spacing. Our results suggest that the pulse energy depends only weakly on the size of the paper regions responsible for sound production.Comment: 12 pages of text, 9 figures, submitted to Phys. Rev. E, additional information availible at http://www.msc.cornell.edu/~houle/crumpling

Uncovering Networks from Genome-Wide Association Studies via Circular Genomic Permutation

Genome-wide association studies (GWAS) aim to detect single nucleotide polymorphisms (SNP) associated with trait variation. However, due to the large number of tests, standard analysis techniques impose highly stringent significance thresholds, leaving potentially associated SNPs undetected, and much of the trait genetic variation unexplained. Pathway- and network-based methodologies applied to GWAS aim to detect associations missed by standard single-marker approaches. The complex and non-random architecture of the genome makes it a challenge to derive an appropriate testing framework for such methodologies. We developed a rapid and simple permutation approach that uses GWAS SNP association results to establish the significance of pathway associations while accounting for the linkage disequilibrium structure of SNPs and the clustering of functionally related elements in the genome. All SNPs used in the GWAS are placed in a “circular genome” according to their location. Then the complete set of SNP association P values are permuted by rotation with respect to the genomic locations of the SNPs. Once these “simulated” P values are assigned, the joint gene P values are calculated using Fisher’s combination test, and the association of pathways is tested using the hypergeometric test. The circular genomic permutation approach was applied to a human genome-wide association dataset. The data consists of 719 individuals from the ORCADES study genotyped for ∼300,000 SNPs and measured for 51 traits ranging from physical to biochemical measurements. KEGG pathways (n = 225) were used as the sets of pathways to be tested. Our results demonstrate that the circular genomic permutations provide robust association P values. The non-permuted hypergeometric analysis generates ∼1400 pathway-trait combination results with an association P value more significant than P ≤ 0.05, whereas applying circular genomic permutation reduces the number of significant results to a more credible 40% of that value. The circular permutation software (“genomicper”) is available as an R package at http://cran.r-project.org/

Local exome sequences facilitate imputation of less common variants and increase power of genome wide association studies

The analysis of less common variants in genome-wide association studies promises to elucidate complex trait genetics but is hampered by low power to reliably detect association. We show that addition of population-specific exome sequence data to global reference data allows more accurate imputation, particularly of less common SNPs (minor allele frequency 1–10%) in two very different European populations. The imputation improvement corresponds to an increase in effective sample size of 28–38%, for SNPs with a minor allele frequency in the range 1–3%

Frequency tuning of the efferent effect on cochlear gain in humans

Cochlear gain reduction via efferent feedback from the medial olivocochlear bundle is frequency specific (Guinan, Curr Opin Otolaryngol Head Neck Surg 18:447-453, 2010). The present study with humans used the Fixed Duration Masking Curve psychoacoustical method (Yasin et al., J Acoust Soc Am 133:4145-4155, 2013a; Yasin et al., Basic aspects of hearing: physiology and perception, pp 39-46, 2013b; Yasin et al., J Neurosci 34:15319-15326, 2014) to estimate the frequency specificity of the efferent effect at the cochlear level. The combined duration of the masker-plus-signal stimulus was 25 ms, within the efferent onset delay of about 31-43 ms (James et al., Clin Otolaryngol 27:106-112, 2002). Masker level (4.0 or 1.8 kHz) at threshold was obtained for a 4-kHz signal in the absence or presence of an ipsilateral 60 dB SPL, 160-ms precursor (200-Hz bandwidth) centred at frequencies between 2.5 and 5.5 kHz. Efferent-mediated cochlear gain reduction was greatest for precursors with frequencies the same as, or close to that of, the signal (gain was reduced by about 20 dB), and least for precursors with frequencies well removed from that of the signal (gain remained at around 40 dB). The tuning of the efferent effect filter (tuning extending 0.5-0.7 octaves above and below the signal frequency) is within the range obtained in humans using otoacoustic emissions (Lilaonitkul and Guinan, J Assoc Res Otolaryngol 10:459-470, 2009; Zhao and Dhar, J Neurophysiol 108:25-30, 2012). The 10 dB bandwidth of the efferent-effect filter at 4000 Hz was about 1300 Hz (Q10 of 3.1). The FDMC method can be used to provide an unbiased measure of the bandwidth of the efferent effect filter using ipsilateral efferent stimulation

Does a lack of physical activity explain the rheumatoid arthritis lipid profile?

Abstract Background In rheumatoid arthritis (RA), cardiovascular risk is associated with paradoxical reductions in total cholesterol, low density lipoprotein-cholesterol (LDL-C), and high density lipoprotein-cholesterol (HDL-C). Concentrations of small LDL (LDL-P) and HDL (HDL-P) particles are also reduced with increased inflammation and disease activity in RA patients. Here we sought to identify which measure(s) of inflammation, disease activity and cardiometabolic risk contribute most to the RA-associated lipoprotein profile. Methods NMR lipoprotein measurements were obtained for individuals with RA (n = 50) and age-, gender-, and body mass index (BMI)-matched controls (n = 39). Groups were compared using 39 matched pairs with 11 additional subjects used in RA only analyses. Among RA patients, relationships were determined for lipoprotein parameters with measures of disease activity, disability, pain, inflammation, body composition, insulin sensitivity and exercise. Percentage of time spent in basal activity (<1 metabolic equivalent) and exercise (≥3 metabolic equivalents) were objectively-determined. Results Subjects with RA had fewer total and small LDL-P as well as larger LDL and HDL size (P < 0.05). Among RA patients, pain and disability were associated with fewer small HDL-P (P < 0.05), while interleukin (IL)-6, IL-18, and TNF-α were associated with LDL size (P < 0.05). BMI, waist circumference, abdominal visceral adiposity and insulin resistance were associated with more total and small LDL-P, fewer large HDL-P, and a reduction in HDL size (P < 0.05). Most similar to the RA lipoprotein profile, more basal activity (minimal physical activity) and less exercise time were associated with fewer small LDL-P and total and small HDL-P (P < 0.05). Conclusions The RA-associated lipoprotein profile is associated with a lack of physical activity. As this was a cross-sectional investigation and not an intervention and was performed from 2008–13, this study was not registered in clinicaltrials.gov