The CEOS Data Cube Portal: A User-Friendly, Open Source Software Solution for the Distribution, Exploration, Analysis, and Visualization of Analysis Ready Data

There is an urgent need to increase the capacity of developing countries to take part in the study and monitoring of their environments through remote sensing and space-based Earth observation technologies. The Open Data Cube (ODC) provides a mechanism for efficient storage and a powerful framework for processing and analyzing satellite data. While this is ideal for scientific research, the expansive feature space can also be daunting for end-users and decision-makers who simply require a solution which provides easy exploration, analysis, and visualization of Analysis Ready Data (ARD). Utilizing innovative web-design and a modular architecture, the Committee on Earth Observation Satellites (CEOS) has created a web-based user interface (UI) which harnesses the power of the ODC yet provides a simple and familiar user experience: the CEOS Data Cube (CDC). This paper presents an overview of the CDC architecture and the salient features of the UI. In order to provide adaptability, flexibility, scalability, and robustness, we leverage widely-adopted and well-supported technologies such as the Django web framework and the AWS Cloud platform. The fully-customizable source code of the UI is available at our public repository. Interested parties can download the source and build their own UIs. The UI empowers users by providing features that assist with streamlining data preparation, data processing, data visualization, and sub-setting ARD products in order to achieve a wide variety of Earth imaging objectives through an easy to use web interface

Lessons Learned and Cost Analysis of Hosting a Full Stack Open Data Cube (ODC) Application on the Amazon Web Services (AWS)

The Open Data Cube (ODC) initiative, with support from the Committee on Earth Observation Satellites (CEOS) System Engineering Office (SEO) has developed a state-of-the-art suite of software tools and products to facilitate the analysis of Earth Observation data. This paper presents a short summary and cost analysis of our experience using Amazon Web Services (AWS) to host one such software product, the CEOS Data Cube (CDC) web-based User Interface (UI). In order to provide adaptability, flexibility, scalability, and robustness, we leverage widely-adopted and well-supported technologies such as the Django web framework and the AWS Cloud platform. The UI has empowered users by providing features that assist with streamlining data preparation, data processing, data visualization, and the sub-setting of Analysis Ready Data (ARD) products in order to achieve a wide variety of Earth imaging objectives

A Systems Engineering Approach to Aircraft Kinetic Kill Countermeasures Technology: Development of an Active Aircraft Defense System for the C/KC-135 Aircraft

Modern Surface to Air Missiles (SAMs) present a significant threat to today\u27s military and civilian aircraft. Current countermeasure systems such as flares and chaff rely on decoying the missile threat and do not provide adequate protection against advanced computerized missiles (Schaffer, 1993:1). An aircraft defense system that actively seeks out and defeats an incoming missile by placing a physical barrier in the missile\u27s path offers a promising alternative to current countermeasures technology. This thesis reports the preliminary design of an active aircraft defense system for the protection of the C/KC-135 aircraft from SAMs. The developed system utilizes a kinetic kill mechanism to protect the aircraft from shoulder launched missiles while the aircraft is in the takeoff and climb-out configurations. Both smart anti-missile expendables and dumb projectile expendables are evaluated. The iterative Systems Engineering approach is used to narrow the solution set to the optimal design. The final outcome is the refined design of two candidate aircraft defense system employing a kinetic kill mechanism. Both systems utilize a modified ultra-violet tracker and employ one of two types of nets, one made out of Detonation Cord and the other made out of Spectra

Large-area submillimeter resolution CdZnTe strip detector for astronomy

We report the first performance measurements of a sub-millimeter CdZnTe strip detector developed as a prototype for space-borne astronomical instruments. Strip detector arrays can be used to provide two-dimensional position resolution with fewer electronic channels than pixellated arrays. Arrays of this type and other candidate technologies are under investigation for the position-sensitive backplane detector for a coded-aperture telescope operating in the range of 30 - 300 keV. The prototype is a 1.4 mm thick, 64 multiplied by 64 stripe CdZnTe array of 0.375 mm pitch in both dimensions, approximately one square inch of sensitive area. Pulse height spectra in both single and orthogonal stripe coincidence mode were recorded at several energies. The results are compared to slab- and pixel-geometry detector spectra. The room-temperature energy resolution is less than 10 keV (FWHM) for 122 keV photons with a peak-to-valley ratio greater than 5:1. The response to photons with energies up to 662 keV appears to be considerably improved relative to that of previously reported slab and pixel detectors. We also show that strip detectors can yield spatial and energy resolutions similar to those of pixellated arrays with the same dimensions. Electrostatic effects on the pulse heights, read-out circuit complexity, and issues related to design of space borne instruments are also discussed

Development of an orthogonal-stripe CdZnTe gamma radiation imaging spectrometer

We report performance measurements of a sub-millimeter resolution CdZnTe strip detector developed as a prototype for astronomical instruments operating with good efficiency in the 30-300 keV photon energy range. The prototype is a 1.4 mm thick, 64×64 contact stripe CdZnTe array of 0.375 mm pitch in both dimensions. Pulse height spectra were recorded in orthogonal-stripe coincidence mode which demonstrate room-temperature energy resolution \u3c10 keV (FWHM) for 122 keV photons with a peak-to-valley ratio \u3e5:1. Good response is also demonstrated at higher energies using a coplanar grid readout configuration. Spatial resolution capabilities finer than the stripe pitch are demonstrated. We present the image of a 133Ba source viewed through a collimator slit produced by a 4×4 stripe detector segment. Charge signals from electron and hole collecting contacts are also discussed

Stem-Loop Recognition by DDX17 Facilitates miRNA Processing and Antiviral Defense

SummaryDEAD-box helicases play essential roles in RNA metabolism across species, but emerging data suggest that they have additional functions in immunity. Through RNAi screening, we identify an evolutionarily conserved and interferon-independent role for the DEAD-box helicase DDX17 in restricting Rift Valley fever virus (RVFV), a mosquito-transmitted virus in the bunyavirus family that causes severe morbidity and mortality in humans and livestock. Loss of Drosophila DDX17 (Rm62) in cells and flies enhanced RVFV infection. Similarly, depletion of DDX17 but not the related helicase DDX5 increased RVFV replication in human cells. Using crosslinking immunoprecipitation high-throughput sequencing (CLIP-seq), we show that DDX17 binds the stem loops of host pri-miRNA to facilitate their processing and also an essential stem loop in bunyaviral RNA to restrict infection. Thus, DDX17 has dual roles in the recognition of stem loops: in the nucleus for endogenous microRNA (miRNA) biogenesis and in the cytoplasm for surveillance against structured non-self-elements

Global Analysis of RNA Secondary Structure in Two Metazoans

The secondary structure of RNA is necessary for its maturation, regulation, processing, and function. However, the global influence of RNA folding in eukaryotes is still unclear. Here, we use a high-throughput, sequencing-based, structure-mapping approach to identify the paired (double-stranded RNA [dsRNA]) and unpaired (single-stranded RNA [ssRNA]) components of the Drosophila melanogaster and Caenorhabditis elegans transcriptomes, which allows us to identify conserved features of RNA secondary structure in metazoans. From this analysis, we find that ssRNAs and dsRNAs are significantly correlated with specific epigenetic modifications. Additionally, we find key structural patterns across protein-coding transcripts that indicate that RNA folding demarcates regions of protein translation and likely affects microRNA-mediated regulation of mRNAs in animals. Finally, we identify and characterize 546 mRNAs whose folding pattern is significantly correlated between these metazoans, suggesting that their structure has some function. Overall, our findings provide a global assessment of RNA folding in animals

The Alliance of Genome Resources: Building a Modern Data Ecosystem for Model Organism Databases.

Model organisms are essential experimental platforms for discovering gene functions, defining protein and genetic networks, uncovering functional consequences of human genome variation, and for modeling human disease. For decades, researchers who use model organisms have relied on Model Organism Databases (MODs) and the Gene Ontology Consortium (GOC) for expertly curated annotations, and for access to integrated genomic and biological information obtained from the scientific literature and public data archives. Through the development and enforcement of data and semantic standards, these genome resources provide rapid access to the collected knowledge of model organisms in human readable and computation-ready formats that would otherwise require countless hours for individual researchers to assemble on their own. Since their inception, the MODs for the predominant biomedical model organisms [Mus sp (laboratory mouse), Saccharomyces cerevisiae, Drosophila melanogaster, Caenorhabditis elegans, Danio rerio, and Rattus norvegicus] along with the GOC have operated as a network of independent, highly collaborative genome resources. In 2016, these six MODs and the GOC joined forces as the Alliance of Genome Resources (the Alliance). By implementing shared programmatic access methods and data-specific web pages with a unified look and feel, the Alliance is tackling barriers that have limited the ability of researchers to easily compare common data types and annotations across model organisms. To adapt to the rapidly changing landscape for evaluating and funding core data resources, the Alliance is building a modern, extensible, and operationally efficient knowledge commons for model organisms using shared, modular infrastructure

Organic salt composition of pressure sensitive adhesives produced by spiders

Natural glues offer great potential as bio-inspired solutions to problems associated with the performance of synthetic adhesives. Spider viscous glues are elastic pressure sensitive adhesives (PSAs) that physically adhere to surfaces on contact across a range of environmental conditions. Extracting useful components from these secretions remains a challenge that can be met by the comparative analyses of functional analogues. Here we used 1H NMR spectroscopy and mass spectrometry to ascertain the organic salt compositions of the PSAs of four different species of Australian spiders belonging to two lineages that independently acquired aqueous gluey secretions: the St Andrew’s cross (Argiope keyserlingi), the redback (Latrodectus hasselti), the false widow (Steatoda grossa), and the daddy long-legs spider (Pholcus phalangiodes). The PSAs from each of these spiders contained similar organic salts, albeit in variable concentrations. The adhesives of the false widow and daddy long-legs spider had mixtures of only a few components, of which betaine predominated, while the PSAs of the other spiders predominantly contained small organic acids such as GABA/GABA-amide, isethionate, and choline salts. Our results suggest that the PSA composition of spiders is likely to be influenced more by environmental factors than evolutionary history and are guided by common principles. Our findings could be valuable for facilitating the design of more sustainable synthetic glues

Expression in Aneuploid Drosophila S2 Cells

Analysis of the relationship between gene copy number and gene expression in aneuploid male Drosophila cells reveals a global compensation mechanism in addition to X chromosome-specific dosage compensation