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At least 1,729 records · Page 96

Local buckling and crippling of composite stiffener sections

Local buckling, postbuckling, and crippling (failure) of channel, zee, and I- and J-section stiffeners made of AS4/3502 graphite-epoxy unidirectional tape are studied by experiment and analysis. Thirty-six stiffener specimens were tested statically to failure in axial compression as intermediate length columns. Web width is 1.25 inches for all specimens, and the flange width-to-thickness ratio ranges from 7 to 28 for the specimens tested. The radius of the stiffener corners is either 0.125 or 0.250 inches. A sixteen-ply orthotropic layup, an eight-ply quasi-isotropic layup, and a sixteen-ply quasi-isotropic layup are examined. Geometrically nonlinear analyses of five specimens were performed with the STAGS finite element code. Analytical results are compared to experimental data. Inplane stresses from STAGS are used to conduct a plane stress failure analysis of these specimens. Also, the development of interlaminar stress equations from equilibrium for classical laminated plate theory is presented. An algorithm to compute high order displacement derivatives required by these equations based on the Discrete Fourier Transform (DFT) is discussed.

Bonanni, David L.↗

Enhancing the Useability of the IAEA's Physical Model: An Analysis of User Feedback

This study presents the results of Physical Model user interviews conducted with 12 people who have International Atomic Energy Agency (IAEA) safeguards experience. The goal of this report is to provide additional context for policy makers when prioritizing the needs of the IAEA regarding support for enhancements to the Physical Model. The interviews covered the general usability of the Physical Model, its effectiveness as a technical reference, and the scope and utility of the Physical Model's indicators and content. The key conclusions from these interviews are as follows: 1) The Physical Model is difficult to find and not well advertised. 2) The Physical Model can be difficult to use due to its format, which makes searching for information difficult, and lack of visual content. Therefore, the Physical Model should be supported in multiple formats (print, PDF, web) to maximize its usability for different stakeholders. 3) The scope of the Physical Model's content and indicators is likely sufficient, and translating indicators into other languages is unlikely to be worth the effort. 4) Despite its inefficiencies and other issues, the Physical Model in its current form is a vital (albeit under-utilized) resource for key stakeholders. 5) Despite its broad use case the Physical Model is not a catch-all tool and force-fitting the Physical Model into functions for which it has not been designed for would likely diminish its value. 6) It can be difficult to disentangle challenges related to the Physical Model and its usability from broader challenges at the Agency, such as general issues with communication and coordination. Based on these conclusions and considering the results of past studies on the Physical Model funded by NA-241, the analysis team developed a list of recommendations and associated actions for IAEA consideration. These recommendations are prioritized based on the assessed level of difficulty for the IAEA to implement a recommendation, emphasizing low hanging fruit then building to more ambitious changes to the Physical Model's format and content.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Cloud Properties Derived From GOES-7 for Spring 1994 ARM Intensive Observing Period Using Version 1.0.0 of ARM Satellite Data Analysis Program

This document describes the initial formulation (Version 1.0.0) of the Atmospheric Radiation Measurement (ARM) program satellite data analysis procedures. Techniques are presented for calibrating geostationary satellite data with Sun synchronous satellite radiances and for converting narrowband radiances to top-of-the-atmosphere fluxes and albedos. A methodology is documented for combining geostationary visible and infrared radiances with surface-based temperature observations to derive cloud amount, optical depth, height, thickness, temperature, and albedo. The analysis is limited to two grids centered over the ARM Southern Great Plains central facility in north-central Oklahoma. Daytime data taken during 5 Apr. - 1 May 1994, were analyzed on the 0.3 deg and 0.5 deg latitude-longitude grids that cover areas of 0.9 deg x 0.9 deg and 10 deg x 14 deg, respectively. Conditions ranging from scattered low cumulus to thin cirrus and thick cumulonimbus occurred during the study period. Detailed comparisons with hourly surface observations indicate that the mean cloudiness is within a few percent of the surface-derived sky cover. Formats of the results are also provided. The data can be accessed through the World Wide Web computer network.

Minnis, Patrick↗

Astronomical Software Directory Service

With the support of NASA's Astrophysics Data Program (NRA 92-OSSA-15), we have developed the Astronomical Software Directory Service (ASDS): a distributed, searchable, WWW-based database of software packages and their related documentation. ASDS provides integrated access to 56 astronomical software packages, with more than 16,000 URLs indexed for full-text searching. Users are performing about 400 searches per month. A new aspect of our service is the inclusion of telescope and instrumentation manuals, which prompted us to change the name to the Astronomical Software and Documentation Service. ASDS was originally conceived to serve two purposes: to provide a useful Internet service in an area of expertise of the investigators (astronomical software), and as a research project to investigate various architectures for searching through a set of documents distributed across the Internet. Two of the co-investigators were then installing and maintaining astronomical software as their primary job responsibility. We felt that a service which incorporated our experience in this area would be more useful than a straightforward listing of software packages. The original concept was for a service based on the client/server model, which would function as a directory/referral service rather than as an archive. For performing the searches, we began our investigation with a decision to evaluate the Isite software from the Center for Networked Information Discovery and Retrieval (CNIDR). This software was intended as a replacement for Wide-Area Information Service (WAIS), a client/server technology for performing full-text searches through a set of documents. Isite had some additional features that we considered attractive, and we enjoyed the cooperation of the Isite developers, who were happy to have ASDS as a demonstration project. We ended up staying with the software throughout the project, making modifications to take advantage of new features as they came along, as well as influencing the software development. The Web interface to the search engine is provided by a gateway program written in C++ by a consultant to the project (A. Warnock).

Hanisch, Robert J.↗

Providing Internet Access to High-Resolution Lunar Images

The OnMoon server is a computer program that provides Internet access to high-resolution Lunar images, maps, and elevation data, all suitable for use in geographical information system (GIS) software for generating images, maps, and computational models of the Moon. The OnMoon server implements the Open Geospatial Consortium (OGC) Web Map Service (WMS) server protocol and supports Moon-specific extensions. Unlike other Internet map servers that provide Lunar data using an Earth coordinate system, the OnMoon server supports encoding of data in Moon-specific coordinate systems. The OnMoon server offers access to most of the available high-resolution Lunar image and elevation data. This server can generate image and map files in the tagged image file format (TIFF) or the Joint Photographic Experts Group (JPEG), 8- or 16-bit Portable Network Graphics (PNG), or Keyhole Markup Language (KML) format. Image control is provided by use of the OGC Style Layer Descriptor (SLD) protocol. Full-precision spectral arithmetic processing is also available, by use of a custom SLD extension. This server can dynamically add shaded relief based on the Lunar elevation to any image layer. This server also implements tiled WMS protocol and super-overlay KML for high-performance client application programs.

Plesea, Lucian↗

Structural Integrity Testing Method for PRSEUS Rod-Wrap Stringer Design

NASA Langley Research Center and The Boeing Company are developing an innovative composite structural concept, called PRSEUS, for the flat center section of a future environmentally friendly hybrid wing body (HWB) aircraft. The PRSEUS (Pultruded Rod Stitched Efficient Unitized Structure) concept uses dry textile preforms for the skins, frames, and stiffener webs. The highly loaded stiffeners are made from precured unidirectional carbon/epoxy rods and dry fiber preforms. The rods are wrapped with the dry fiber preforms and a resin infusion process is used to form the rod-wrap stiffeners. The structural integrity of the rod-wrap interface is critical for maintaining the panel s high strength and bending rigidity. No standard testing method exists for testing the strength of the rod-wrap bondline. Recently, Boeing proposed a rod push-out testing method and conducted some preliminary tests using this method. This paper details an analytical study of the rod-wrap bondline. The rod-wrap interface is modeled as a cohesive zone for studying the initiation and growth of interfacial debonding during push-out testing. Based on the correlations of analysis results and Boeing s test data, the adequacy of the rod-wrap testing method is evaluated, and potential approaches for improvement of the test method are proposed.

Wang, John T.↗

'The surface management system' (SuMS) database: a surface-based database to aid cortical surface reconstruction, visualization and analysis

Surface reconstructions of the cerebral cortex are increasingly widely used in the analysis and visualization of cortical structure, function and connectivity. From a neuroinformatics perspective, dealing with surface-related data poses a number of challenges. These include the multiplicity of configurations in which surfaces are routinely viewed (e.g. inflated maps, spheres and flat maps), plus the diversity of experimental data that can be represented on any given surface. To address these challenges, we have developed a surface management system (SuMS) that allows automated storage and retrieval of complex surface-related datasets. SuMS provides a systematic framework for the classification, storage and retrieval of many types of surface-related data and associated volume data. Within this classification framework, it serves as a version-control system capable of handling large numbers of surface and volume datasets. With built-in database management system support, SuMS provides rapid search and retrieval capabilities across all the datasets, while also incorporating multiple security levels to regulate access. SuMS is implemented in Java and can be accessed via a Web interface (WebSuMS) or using downloaded client software. Thus, SuMS is well positioned to act as a multiplatform, multi-user 'surface request broker' for the neuroscience community.

NASA Discipline Neuroscience↗

Solar Energy Deposition Rates in the Mesosphere Derived from Airglow Measurements: Implications for the Ozone Model Deficit Problem

We derive rates of energy deposition in the mesosphere due to the absorption of solar ultraviolet radiation by ozone. The rates are derived directly from measurements of the 1.27-microns oxygen dayglow emission, independent of knowledge of the ozone abundance, the ozone absorption cross sections, and the ultraviolet solar irradiance in the ozone Hartley band. Fifty-six months of airglow data taken between 1982 and 1986 by the near-infrared spectrometer on the Solar-Mesosphere Explorer satellite are analyzed. The energy deposition rates exhibit altitude-dependent annual and semi-annual variations. We also find a positive correlation between temperatures and energy deposition rates near 90 km at low latitudes. This correlation is largely due to the semiannual oscillation in temperature and ozone and is consistent with model calculations. There is also a suggestion of possible tidal enhancement of this correlation based on recent theoretical and observational analyses. The airglow-derived rates of energy deposition are then compared with those computed by multidimensional numerical models. The observed and modeled deposition rates typically agree to within 20%. This agreement in energy deposition rates implies the same agreement exists between measured and modeled ozone volume mixing ratios in the mesosphere. Only in the upper mesosphere at midlatitudes during winter do we derive energy deposition rates (and hence ozone mixing ratios) consistently and significantly larger than the model calculations. This result is contrary to previous studies that have shown a large model deficit in the ozone abundance throughout the mesosphere. The climatology of solar energy deposition and heating presented in this paper is available to the community at the Middle Atmosphere Energy Budget Project web site at http://heat-budget.gats-inc.com.

Mlynczak, Martin G.↗

Laboratory for Atmospheres: Philosophy, Organization, Major Activities, and 2001 Highlights

How can we improve our ability to predict the weather? How is the Earth's climate changing? What can the atmospheres of other planets teach us about our own? The Laboratory for Atmospheres is helping to answer these and other scientific questions. The Laboratory conducts a broad theoretical and experimental research program studying all aspects of the atmospheres of the Earth and other planets, including their structural, dynamical, radiative, and chemical properties. Vigorous research is central to NASA's exploration of the frontiers of knowledge. NASA scientists play a key role in conceiving new space missions, providing mission requirements., and carrying out research to explore the behavior of planetary systems, including, notably, the Earth's. Our Laboratory's scientists also supply outside scientists with technical assistance and scientific data to further investigations not immediately addressed by NASA itself. The Laboratory for Atmospheres is a vital participant in NASA's research program. The Laboratory is part of the Earth Sciences Directorate based at NASA's Goddard Space Flight Center in Greenbelt, Maryland. The Directorate itself comprises the Global Change Data Center; the Earth and Space Data Computing Division; three laboratories: the Laboratory for Atmospheres, the Laboratory for Terrestrial Physics, and the Laboratory for Hydrospheric Processes; and the Goddard Institute for Space Studies (GISS) in New York, New York. In this report, you will find a statement of our philosophy and a description of our role in NASA's mission. You'll also find a broad description of our research and a summary of our scientists' major accomplishments in 2001. The report also presents useful information on human resources, scientific interactions, and outreach activities with the outside community. For your convenience, we have published a version of this report on the Internet. Our Web site includes links to additional information about the Laboratory's Offices and Branches. You can find us on the World Wide Web at http://atmospheres.gsfc.nasa.gov.

Hoegy, Walter R.↗

University Data Management Pilot Utilizing the Nuclear Research Data System

Background In 2022, the Office of Science and Technology Policy (OSTP) issued a memo that significantly reshaped the landscape of access to federally funded research. The memo mandated that all taxpayer-funded research be made available to the public without delay upon publication, without an embargo period, superseding the 2013 OSTP public access policy. This public access policy promotes transparency and the democratization of knowledge, ensuring that the fruits of scientific endeavors funded by federal agencies could be immediately accessed and built upon by scientists, educators, students, and the public at large. To implement the requirements of the OSTP guidance and DOE Public Access Plan, the Office of Nuclear Energy (NE) has implemented public access plan guidance and has identified several areas where better data management practices would further expand public access to important nuclear energy related scientific data, reports, and other technical products. Significant NE supported efforts are already underway for data management and public access to important nuclear energy related data.1 2 To address gaps in data management practices, and improve retention and accessibility of data, NE is actively exploring enhanced data management options utilizing its high-performance computing resources administered by its Nuclear Scientific User Facility Program. A newly piloted system, the Nuclear Research Data System (NRDS) acts as a portal for data collection and dissemination. Nuclear Energy University Program Research and Development Portfolio According to Web of Science, NEUP has produced 2,345 journal publication that have been cited more than 61,000 times3 and countless conference proceedings. These publications are publicly available through OSTI.gov and in the open literature. Additional scientific and technical products including project milestones that are not publications and NEUP project final reports are vetted through OSTI.gov and released once reviewed and approved by DOE. Since 2009, NEUP has awarded close to 1,000 different R&D projects in technical areas across the NE research programs. As of June 2023, 512 NEUP reports are publicly available on OSTI. The underlying data for projects is still held at universities, and data transfer, co-location, and dissemination has not occurred in a systematic way. NEUP data is currently accessible through myriad university-based data repositories, or through direct requests to PIs. The program identified this patchwork of repositories, or often lack of publicly available data, as a significant barrier to an organized, accessible, and comprehensive solution to sharing data with the larger nuclear energy community. Approach The goal of this pilot project is to establish a pathway to a consolidated long-term repository for NEUP project data. To accomplish this goal, the pilot strives to accomplish the following objectives: Establish data collection standards, including a standard set of required supplementary information to contextualize and support raw data files. Work with the HPC group collect and upload information and to modify the NRDS system, as needed, to support a standardized approach. Resolve potential barriers to successful roll out of an expanded data collection strategy, including modifying data management plan guidelines and establishing a document and data release process that accounts for potential intellectual property and/or export control concerns. Results Overall, the pilot was successful in collecting 8,982 raw and processes data files, 220 reports, 56 calibration files, and 5,931 other supplementary documents. Supplementary documents included experimental plans, methods, journal publications and conference proceedings, milestone reports, and final reports. Figure 2 shows the number of data sets and supplementary project information provided by each project. Projects has significantly different input, depending on experimental data produced and completeness of the datasets provided.

Data collection↗

Iron-based binary ferromagnets for transverse thermoelectric conversion

Thermoelectric generation using the anomalous Nernst effect (ANE) has great potential for application in energy harvesting technology because the transverse geometry of the Nernst effect should enable efficient, large-area and flexible coverage of a heat source. For such applications to be viable, substantial improvements will be necessary not only for their performance but also for the associated material costs, safety and stability. In terms of the electronic structure, the anomalous Nernst effect (ANE) originates from the Berry curvature of the conduction electrons near the Fermi energy. To design a large Berry curvature, several approaches have been considered using nodal points and lines in momentum space. Here we perform a high-throughput computational search and find that 25 percent doping of aluminium and gallium in alpha iron, a naturally abundant and low-cost element, dramatically enhances the ANE by a factor of more than ten, reaching about 4 and 6 microvolts per kelvin at room temperature, respectively, close to the highest value reported so far. The comparison between experiment and theory indicates that the Fermi energy tuning to the nodal web—a flat band structure made of interconnected nodal lines—is the key for the strong enhancement in the transverse thermoelectric coefficient, reaching a value of about 5 amperes per kelvin per metre with a logarithmic temperature dependence. We have also succeeded in fabricating thin films that exhibit a large ANE at zero field, which could be suitable for designing low-cost, flexible microelectronic thermoelectric generators.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

SDSS-IV MaNGA: 3D spin alignment of spiral and S0 galaxies

ABSTRACT We investigate the 3D spin alignment of galaxies with respect to the large-scale filaments using the MaNGA survey. The cosmic web is reconstructed from the Sloan Digital Sky Survey using disperse and the 3D spins of MaNGA galaxies are estimated using the thin disc approximation with integral field spectroscopy kinematics. Late-type spiral galaxies are found to have their spins parallel to the closest filament’s axis. The alignment signal is found to be dominated by low-mass spirals. Spins of S0-type galaxies tend to be oriented preferentially in perpendicular direction with respect to the filament’s axis. This orthogonal orientation is found to be dominated by S0s that show a notable misalignment between their kinematic components of stellar and ionized gas velocity fields and/or by low-mass S0s with lower rotation support compared to their high-mass counterparts. Qualitatively similar results are obtained when splitting galaxies based on the degree of ordered stellar rotation, such that galaxies with high spin magnitude have their spin aligned, and those with low spin magnitude in perpendicular direction to the filaments. In the context of conditional tidal torque theory, these findings suggest that galaxies’ spins retain memory of their larger scale environment. In agreement with measurements from hydrodynamical cosmological simulations, the measured signal at low redshift is weak, yet statistically significant. The dependence of the spin-filament orientation of galaxies on their stellar mass, morphology, and kinematics highlights the importance of sample selection to detect the signal.

Kraljic, Katarina↗

Recent Results From The Nasa Earth Science Terra Mission and Future Possibilities

The NASA Earth Sciences Enterprise has made some remarkable strides in recent times in using developing, implementing, and utilizing spaceborne observations to better understand how the Earth works as a coupled, interactive system of the land, ocean, and atmosphere. Notable examples include the Upper Atmosphere Research (UARS) Satellite, the Topology Ocean Experiment (TOPEX) mission, Landsat-7, SeaWiFS, the Tropical Rainfall Monitoring Mission (TRMM), Quickscatt, the Shuttle Radar Topography Mission (SRTM), and, quite recently, the Terra'/Earth Observing System-1 mission. The Terra mission, for example, represents a major step forward in providing sensors that offer considerable advantages and progress over heritage instruments. The Moderate Resolution Imaging Spectrometer (MODIS), the Multi-angle Imaging SpectroRadiometer (MISR), the Measurements of Pollution in the Troposphere (MOPITT), the Advanced Spaceborne Thermal Emissions and Reflections (ASTER) radiometer, and the Clouds and Earth's Radiant Energy System (CERES) radiometer are the instruments involved. Early indications in March indicate that each of these instruments are working well and will be augmenting data bases from heritage instruments as well as producing new, unprecedented observations of land, ocean, and atmosphere features. Several missions will follow the Terra mission as the Earth Observing mission systems complete development and go into operation. These missions include EOS PM-1/'Aqua', Icesat, Vegetation Canopy Lidar (VCL), Jason/TOPEX Follow-on, the Chemistry mission, etc. As the Earth Observing systems completes its first phase in about 2004 a wealth of data enabling better understanding of the Earth and the management of its resources will have been provided. Considerable thought is beginning to be placed on what advances in technology can be implemented that will enable further advances in the early part of the 21st century; e.g., in the time from of 2020. Concepts such as 'constellation' missions or 'formation flying' with 'sensorcraft', 'sensor webs', autonomous operation of satellites, more on-board processing and delivery to individual users, data synthesis and analysis in real-time, etc. are being considered. With the data now having been and soon to be received plus the very real possibilities of further advances in use and applicability of data the potential for very significant gains in knowledge for Earth studies and applications looks quite high in the next decade or two.

Salomonson, Vincent V.↗

Space Commercial Opportunities for Fluid Physics and Transport Phenomena Applications

Microgravity research at NASA has been an undertaking that has included both science and commercial approaches since the late 80s and early 90s. The Fluid Physics and Transport Phenomena community has been developed, through NASA's science grants, into a valuable base of expertise in microgravity science. This was achieved through both ground and flight scientific research. Commercial microgravity research has been primarily promoted thorough NASA sponsored Centers for Space Commercialization which develop cost sharing partnerships with industry. As an example, the Center for Advanced Microgravity Materials Processing (CAMMP)at Northeastern University has been working with cost sharing industry partners in developing Zeolites and zeo-type materials as an efficient storage medium for hydrogen fuel. Greater commercial interest is emerging. The U.S. Congress has passed the Commercial Space Act of 1998 to encourage the development of a commercial space industry in the United States. The Act has provisions for the commercialization of the International Space Station (ISS). Increased efforts have been made by NASA to enable industrial ventures on-board the ISS. A Web site has been established at http://commercial/nasa/gov which includes two important special announcements. One is an open request for entrepreneurial offers related to the commercial development and use of the ISS. The second is a price structure and schedule for U.S. resources and accommodations. The purpose of the presentation is to make the Fluid Physics and Transport Phenomena community, which understands the importance of microgravity experimentation, aware of important aspects of ISS commercial development. It is a desire that this awareness will be translated into a recognition of Fluid Physics and Transport Phenomena application opportunities coordinated through the broad contacts of this community with industry.

Gavert, R.↗

The Invasive Species Forecasting System (ISFS): An iRODS-Based, Cloud-Enabled Decision Support System for Invasive Species Habitat Suitability Modeling

The Invasive Species Forecasting System (ISFS) is an online decision support system that allows users to load point occurrence field sample data for a plant species of interest and quickly generate habitat suitability maps for geographic regions of interest, such as a national park, monument, forest, or refuge. Target customers for ISFS are natural resource managers and decision makers who have a need for scientifically valid, model- based predictions of the habitat suitability of plant species of management concern. In a joint project involving NASA and the Maryland Department of Natural Resources, ISFS has been used to model the potential distribution of Wavyleaf Basketgrass in Maryland's Chesapeake Bay Watershed. Maximum entropy techniques are used to generate predictive maps using predictor datasets derived from remotely sensed data and climate simulation outputs. The workflow to run a model is implemented in an iRODS microservice using a custom ISFS file driver that clips and re-projects data to geographic regions of interest, then shells out to perform MaxEnt processing on the input data. When the model completes, all output files and maps from the model run are registered in iRODS and made accessible to the user. The ISFS user interface is a web browser that uses the iRODS PHP client to interact with the ISFS/iRODS- server. ISFS is designed to reside in a VMware virtual machine running SLES 11 and iRODS 3.0. The ISFS virtual machine is hosted in a VMware vSphere private cloud infrastructure to deliver the online service.

Gill, Roger↗

Public-Private Collaborations with Earth-Space Benefits

The NASA Human Health and Performance Center (NHHPC) was established in October 2010 to promote collaborative problem solving and project development to advance human health and performance innovations benefiting life in space and on Earth. The NHHPC, which now boasts over 150 corporate, government, academic and non-profit members, has convened four successful workshops and engaged in multiple collaborative projects. The virtual center facilitates member engagement through a variety of vehicles, including annual in-person workshops, webcasts, quarterly electronic newsletters, web postings, and the new system for partner engagement. NHHPC workshops serve to bring member organizations together to share best practices, discuss common goals, and facilitate development of the collaborative projects. The most recent NHHPC workshop was conducted in November 2013 on the topic of "Accelerating Innovation: New Organizational Business Models," and focused on various collaborative approaches successfully used by organizations to achieve their goals. Past workshops have addressed smart media and health applications, connecting through collaboration, microbiology innovations, and strategies and best practices in open innovation. A fifth workshop in Houston, Texas, planned for September 18, 2014, will feature "Innovation Through Co-Development: Engaging Partners". One area of great interest to NASA is mobile health applications, including mobile laboratory analytics, health monitoring, and close loop sensing, all of which also offer ground-based health applications for remote and underserved areas. Another project being coordinated by NASA and the Health and Environmental Sciences Institute is the pursuit of one to several novel strategies to increase medication stability that would enable health care in remote terrestrial settings as well as during space flight. NASA has also funded work with corporate NHHPC partner GE, seeking to develop ultrasound methodologies that will enable NASA to further understand the eye changes related to long-duration space flight. The adaptation of ultrasound to this type of eye examination could also expand the use of ultrasound in health care on the Earth in settings where MRIs are not available. To further engage NHHPC members and facilitate partnership development for NASA, the NHHPC created and deployed an engagement system in 2014 that facilitates identification and evaluation of technical needs and opportunities among all NHHPC members.

Davis, Jeffrey R.↗

BinaRena: a dedicated interactive platform for human-guided exploration and binning of metagenomes

Background: Exploring metagenomic contigs and “binning” them into metagenome-assembled genomes (MAGs) are essential for the delineation of functional and evolutionary guilds within microbial communities. Despite the advances in automated binning algorithms, their capabilities in recovering MAGs with accuracy and biological relevance are so far limited. Researchers often find that human involvement is necessary to achieve representative binning results. This manual process however is expertise demanding and labor intensive, and it deserves to be supported by software infrastructure. Results: We present BinaRena, a comprehensive and versatile graphic interface dedicated to aiding human operators to explore metagenome assemblies via customizable visualization and to associate contigs with bins. Contigs are rendered as an interactive scatter plot based on various data types, including sequence metrics, coverage profiles, taxonomic assignments, and functional annotations. Various contig-level operations are permitted, such as selection, masking, highlighting, focusing, and searching. Binning plans can be conveniently edited, inspected, and compared visually or using metrics including silhouette coefficient and adjusted Rand index. Completeness and contamination of user-selected contigs can be calculated in real time. In demonstration of BinaRena’s usability, we show that it facilitated biological pattern discovery, hypothesis generation, and bin refinement in a complex tropical peatland metagenome. It enabled isolation of pathogenic genomes within closely related populations from the gut microbiota of diarrheal human subjects. It significantly improved overall binning quality after curating results of automated binners using a simulated marine dataset. Conclusions: BinaRena is an installation-free, dependency-free, client-end web application that operates directly in any modern web browser, facilitating ease of deployment and accessibility for researchers of all skill levels. The program is hosted at https://github.com/qiyunlab/binarena, together with documentation, tutorials, example data, and a live demo. It effectively supports human researchers in intuitive interpretation and fine tuning of metagenomic data.

59 BASIC BIOLOGICAL SCIENCES↗

Observing the Global Water Cycle from Space

This paper presents an approach to measuring all major components of the water cycle from space. The goal of the paper is to explore the concept of using a sensor-web of satellites to observe the global water cycle. The details of the required measurements and observation systems are therefore only an initial approach and will undergo future refinement, as their details will be highly important. Key elements include observation and evaluation of all components of the water cycle in terms of the storage of water-in the ocean, air, cloud and precipitation, in soil, ground water, snow and ice, and in lakes and rivers-and in terms of the global fluxes of water between these reservoirs. For each component of the water cycle that must be observed, the appropriate temporal and spatial scales of measurement are estimated, along with the some of the frequencies that have been used for active and passive microwave observations of the quantities. The suggested types of microwave observations are based on the heritage for such measurements, and some aspects of the recent heritage of these measurement algorithms are listed. The observational requirements are based on present observational systems, as modified by expectations for future needs. Approaches to the development of space systems for measuring the global water cycle can be based on these observational requirements.

Hildebrand, Peter H.↗