Solution of nonlinear algebraic equations characteristic of filter circuits Summary technical report

Digital computer program developed for solving nonlinear algebraic equations characteristic of filter circuit

Chromosomal in situ suppression hybridization of human gonosomes and autosomes and its use in clinical cytogenetics

DNA libraries from sorted human gonosomes were used selectively to stain the X and Y chromosomes in normal and aberrant cultured human cells by chromosomal in situ suppression (CISS-) hybridization. The entire X chromosome was stained in metaphase spreads. Interphase chromosome domains of both the active and inactive X were clearly delineated. CISS-hybridization of the Y chromosome resulted in the specific decoration of the euchromatic part (Ypter-q11), whereas the heterochromatic part (Yq12) remained unlabeled. The stained part of the Y chromosome formed a compact domain in interphase nuclei. This approach was applied to amniotic fluid cells containing a ring chromosome of unknown origin (47,XY; +r). The ring chromosome was not stained by library probes from the gonosomes, thereby suggesting its autosomal origin. The sensitivity of CISS-hybridization was demonstrated by the detection of small translocations and fragments in human lymphocyte metaphase spreads after irradiation with 60Co-gamma-rays. Lymphocyte cultures from two XX-males were investigated by CISS-hybridization with Y-library probes. In both cases, metaphase spreads demonstrated a translocation of Yp-material to the short arm of an X chromosome. The translocated Y-material could also be demonstrated directly in interphase nuclei. CISS-hybridization of autosomes 7 and 13 was used for prenatal diagnosis in a case with a known balanced translocation t(7;13) in the father. The same translocation was observed in amniotic fluid cells from the fetus. Specific staining of the chromosomes involved in such translocations will be particularly important, in the future, in cases that cannot be solved reliably by conventional chromosome banding alone

Life Science Research and Drug Discovery at the Turn of the 21st Century: The Experience of SwissBioGrid

Background It is often said that the life sciences are transforming into an information science. As laboratory experiments are starting to yield ever increasing amounts of data and the capacity to deal with those data is catching up, an increasing share of scientific activity is seen to be taking place outside the laboratories, sifting through the data and modelling “in silico” the processes observed “in vitro.” The transformation of the life sciences and similar developments in other disciplines have inspired a variety of initiatives around the world to create technical infrastructure to support the new scientific practices that are emerging. The e-Science programme in the United Kingdom and the NSF Office for Cyberinfrastructure are examples of these. In Switzerland there have been no such national initiatives. Yet, this has not prevented scientists from exploring the development of similar types of computing infrastructures. In 2004, a group of researchers in Switzerland established a project, SwissBioGrid, to explore whether Grid computing technologies could be successfully deployed within the life sciences. This paper presents their experiences as a case study of how the life sciences are currently operating as an information science and presents the lessons learned about how existing institutional and technical arrangements facilitate or impede this operation. Results SwissBioGrid gave rise to two pilot projects: one for proteomics data analysis and the other for high-throughput molecular docking (“virtual screening”) to find new drugs for neglected diseases (specifically, for dengue fever). The proteomics project was an example of a data management problem, applying many different analysis algorithms to Terabyte-sized datasets from mass spectrometry, involving comparisons with many different reference databases; the virtual screening project was more a purely computational problem, modelling the interactions of millions of small molecules with a limited number of protein targets on the coat of the dengue virus. Both present interesting lessons about how scientific practices are changing when they tackle the problems of large-scale data analysis and data management by means of creating a novel technical infrastructure. Conclusions In the experience of SwissBioGrid, data intensive discovery has a lot to gain from close collaboration with industry and harnessing distributed computing power. Yet the diversity in life science research implies only a limited role for generic infrastructure; and the transience of support means that researchers need to integrate their efforts with others if they want to sustain the benefits of their success, which are otherwise lost

B640: An Evaluation of the Distribution of Trucked Pulpwood in East-Central Maine

The movement of pulpwood from forest to market can be a critical and costly activity. Many factors influence this movement and contribute to its complexity. In 1963, a study was undertaken to quantitatively describe the distribution patterns of trucked pulpwood for a representative area of the state of Maine.https://digitalcommons.library.umaine.edu/aes_bulletin/1074/thumbnail.jp

Ultra-compact optical auto-correlator based on slow-light enhanced third harmonic generation in a silicon photonic crystal waveguide

The ability to use coherent light for material science and applications is directly linked to our ability to measure short optical pulses. While free-space optical methods are well-established, achieving this on a chip would offer the greatest benefit in footprint, performance, flexibility and cost, and allow the integration with complementary signal processing devices. A key goal is to achieve operation at sub-Watt peak power levels and on sub-picosecond timescales. Previous integrated demonstrations require either a temporally synchronized reference pulse, an off-chip spectrometer, or long tunable delay lines. We report the first device capable of achieving single-shot time-domain measurements of near-infrared picosecond pulses based on an ultra-compact integrated CMOS compatible device, with the potential to be fully integrated without any external instrumentation. It relies on optical third-harmonic generation in a slow-light silicon waveguide. Our method can also serve as a powerful in-situ diagnostic tool to directly map, at visible wavelengths, the propagation dynamics of near-infrared pulses in photonic crystals.Comment: 20 pages, 6 figures, 38 reference

MODELING RATIOS WITH POTENTIAL ZERO-INFLATION TO ASSESS SOIL NEMATODE COMMUNITY STRUCTURE

The southern root-knot nematode (SRKN) and the weedy perennials, yellow nutsedge (YNS) and purple nutsedge (PNS) are simultaneously-occurring pests in the irrigated agricultural soils of southern New Mexico. Previous research has characterized SRKN, YNS and PNS as a mutually beneficial pest complex and has shown their enhanced population growth and survival when they occur together. In addition, it was shown that the density of nutsedge in a field could be used as a predictor of SRKN juveniles in the soil. In addition to SRKN, which is the most harmful of the plant parasitic nematodes, in southern New Mexico other species or categories of nematodes were identified and counted. Some of them are not as damaging to crop plants as SRKN, and some of them may be essential for soil health. The nematode species could be grouped into categories according to trophic level (what nematodes eat) and herbivore feeding behavior (how herbivore nematodes eat). Then three ratios of counts each were calculated for trophic and feeding behavior categories to investigate the soil nematode community structure. These proportions were modeled as functions of the weed hosts YNS and PNS by generalized linear regression models using the logit link function and three distributions: the Binomial, Zero-Inflated Binomial (ZIB) and Binomial Hurdle (BH). The latter two were used to account for potential high proportions of zeroes in the data. Formulas for the probability mass functions and moments were developed for the ZIB and BH. The SAS NLMIXED procedure was used to fit models for each of three sampling dates (May, July and September) in the two years of an alfalfa field study. General results showed that the Binomial generally provided the best fit, indicating lower zero-inflation than expected, but that ZIB and BH are often comparable. Importance of YNS and PNS predictors varied over sample dates and ratios. Specific results for one selected ratio illustrate the differences in estimated probabilities between Binomial, ZIB and BH distributions as YNS counts increase

A Machine Learning Algorithm for Himawari-8 Total Suspended Solids Retrievals in the Great Barrier Reef

Remote sensing of ocean colour has been fundamental to the synoptic-scale monitoring of marine water quality in the Great Barrier Reef (GBR). However, ocean colour sensors onboard low orbit satellites, such as the Sentinel-3 constellation, have insufficient revisit capability to fully resolve diurnal variability in highly dynamic coastal environments. To overcome this limitation, this work presents a physics-based coastal ocean colour algorithm for the Advanced Himawari Imager onboard the Himawari-8 geostationary satellite. Despite being designed for meteorological applications, Himawari-8 offers the opportunity to estimate ocean colour features every 10 min, in four broad visible and near-infrared spectral bands, and at 1 km2 spatial resolution. Coupled ocean–atmosphere radiative transfer simulations of the Himawari-8 bands were carried out for a realistic range of in-water and atmospheric optical properties of the GBR and for a wide range of solar and observation geometries. The simulated data were used to develop an inverse model based on artificial neural network techniques to estimate total suspended solids (TSS) concentrations directly from the Himawari-8 top-of-atmosphere spectral reflectance observations. The algorithm was validated with concurrent in situ data across the coastal GBR and its detection limits were assessed. TSS retrievals presented relative errors up to 75% and absolute errors of 2 mg L−1 within the validation range of 0.14 to 24 mg L−1, with a detection limit of 0.25 mg L−1. We discuss potential applications of Himawari-8 diurnal TSS products for improved monitoring and management of water quality in the GBR