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At least 595 records · Page 33

A practical approach to using the Genomic Standards Consortium MIxS reporting standard for comparative genomics and metagenomics

Comparative analysis of (meta)genomes necessitates aggregation, integration, and synthesis of well-annotated data using standards. The Genomic Standards Consortium (GSC) collaborates with the research community to develop and maintain the Minimal Information about any (x) Sequence (MIxS) reporting standard for genomic data. To facilitate use of the GSC’s MIxS reporting standard, we provide a description of the structure and terminology, how to navigate ontologies for required terms in MIxS, and demonstrate practical usage through a soil metagenome example.

standards, metadata, genome, metagenome, schema, v↗

A global data set of soil particle size properties

A standardized global data set of soil horizon thicknesses and textures (particle size distributions) was compiled. This data set will be used by the improved ground hydrology parameterization designed for the Goddard Institute for Space Studies General Circulation Model (GISS GCM) Model 3. The data set specifies the top and bottom depths and the percent abundance of sand, silt, and clay of individual soil horizons in each of the 106 soil types cataloged for nine continental divisions. When combined with the World Soil Data File, the result is a global data set of variations in physical properties throughout the soil profile. These properties are important in the determination of water storage in individual soil horizons and exchange of water with the lower atmosphere. The incorporation of this data set into the GISS GCM should improve model performance by including more realistic variability in land-surface properties.

Webb, Robert S.↗

Standard methods for telemetry and telecommand channel coding

Recommendations being developed by the NASA-ESA Working Group (NEWG) for Space Data Systems Standardization and the Consultative Committee for Space Data Systems (CCSDS) to standardize spacecraft telemetry and command coding are characterized. The telemetry convolutional codes used by JPL, ESA, and GSFC are found to be similar but incompatible, and it is recommended that a secondary capability for the other two schemes be developed at each facility, with the GSFC scheme as the ultimate standard, a periodic convolutional interleaving procedure for use with the NASA Tracking and Data Relay Satellite, and an optional concatenation of the convolutional code with a Reed-Solomon code to achieve up to 6.8 dB of gain. The telecommand-coding approach adopted by CCSDS is based on the schemes in use at JPL and GSFC.

Macmedan, M. L.↗

GeneLab: A Systems Biology Platform for Omics Analysis

NASA GeneLab is an open-access repository for omics datasets generated by biological experiments conducted in space or experiments relevant to spaceflight (e.g. simulated cosmic radiation, simulated microgravity, bed rest studies). The GeneLab Data Systems (GLDS) version 4.0 will be available on October 1st 2019, and will provide the latest in terms of professional state-of-the-art bioinformatics platform for the space biology and radiation community to upload their data into an omics data commons, to process their data with vetted standard workflows and to compare to existing analyses. Started in 2015 as a repository designed to archive omics data from space experiments, GeneLab has expanded its scope to all ionizing radiation omics experiments conducted on the ground and has put considerable effort in providing carefully characterized radiation metadata on all dataset. GeneLab is also providing processed data derived from the raw data covering a large spectrum of omics (genome, epigenome, transcriptome, epitranscriptome, proteome, metabolome) to help users explore important questions: 1) Which genes or proteins are expressed differently in space for various living organisms? 2) What specific DNA mutations or epigenetic changes happen in space or after exposure to ionizing radiation? and 3) How does genetics affect these responses? Processed data available on GeneLab are derived by standard data analysis workflows vetted by hundreds of scientists who volunteered to join one of the four GeneLab Analysis Working Groups (Animal AWG, Plant AWG, Microbe AWG, Multi-Omics AWG). In this presentation, we will discuss how to bridge the gap between irradiation studies performed on earth and biological experiments conducted in space since the early 1990's. We will discuss how radiation dosimetry was estimated for datasets derived from samples collected during the Space Shuttle era or on the International Space Station. Finally, we will address future strategies regarding dose monitoring in future missions into space, inter-agency efforts to unify data under one umbrella, and knowledge dissemination across the radiation research community and the space biology community.

open-science↗

NASA GeneLab Space Omics Database: Expanding from Space to Ionizing Radiation Data on the Ground

NASA GeneLab is an open-access repository for omics datasets generated by biological experiments conducted in space or ground experiments relevant to spaceflight (e.g. simulated cosmic radiation, simulated microgravity, bed rest studies). The GeneLab Data Systems (GLDS) version 4.0 will be available on October 1st 2019, and will provide a state-of-the-art bioinformatics platform for the space biology and radiation communities to upload their data into an omics data commons, to process their data with vetted standard workflows and to compare with existing analyses. Started in 2015 as a repository designed to archive omics data from space experiments, GeneLab has expanded its scope to all ionizing radiation omics experiments conducted on the ground and has put considerable effort in providing carefully characterized radiation metadata on all datasets. GeneLab is also providing processed data derived from the raw data covering a large spectrum of omics (genome, epigenome, transcriptome, epitranscriptome, proteome, metabolome) to help users explore important questions: 1) Which genes or proteins are expressed differently in space for various living organisms? 2) What specific DNA mutations or epigenetic changes happen in space or after exposure to ionizing radiation? and 3) How does genetics affect these responses? Processed data available on GeneLab are derived by standard data analysis workflows vetted by hundreds of scientists who volunteered to join one of the four GeneLab Analysis Working Groups (Animal AWG, Plant AWG, Microbe AWG, Multi-Omics AWG). In this presentation, we will discuss how to bridge the gap between irradiation studies performed on earth and biological experiments conducted in space since the early 1990's. We will discuss how radiation dosimetry was estimated for datasets derived from samples collected during the Space Shuttle era on the International Space Station and on other orbiting platforms. Finally, we will address future strategies regarding dose monitoring in future missions into space, inter-agency efforts to unify data under one umbrella, and knowledge dissemination across the radiation research community and the space biology community.

open-science↗

A use-case-driven approach for demonstrating the added value of digitalisation in wind energy

Digitalisation is one of the key drivers for reducing the costs and risks of wind energy. When considering whether to embark on a digitalisation initiative, two key questions arise. The first is what business or operational opportunities might feasibly be addressed and the second is which of the many potential aspects of digitalisation are relevant to those opportunities. In this work, we show how these questions can be answered with a use-case-driven approach, based around a survey aiming to collect and collate the main "pain points" (or everyday challenges) of people in the wind energy sector. Although the relatively low number of participants of the survey (46) means that the results should only be used indicatively, it is still possible to make some general recommendations for priorities for digitalisation efforts in the wind energy sector. Firstly, digitalisation efforts should focus both on supporting people carrying out cross-lifecycle tasks, in particular sharing data, managing data, undertaking general data analyses and accessing data. Tools to do this should deal with varying data formats and naming conventions, make metadata more accessible, define data and metadata standards, make more data publicly available and improve the quality of data. Secondly, efforts should also focus on supporting people in the wind farm operational phase, in particular with failure detection, fault diagnosis, failure rate modelling and predictive maintenance. Solutions to do this should focus on accessible and validated tools for fault detection, cloud or other data pipeline solutions for SCADA data and tools for exhaustive data documentation. Finally, digitalisation efforts should focus on better communicating and helping people become aware of existing solutions and tools, as well as on helping people to exert a stronger influence on possible solutions.

17 WIND ENERGY↗

TripleGraph

RDF triplestores are great tools for online graph analytic processing (i.e., graph pattern query processing), but they do not provide graph mining capabilities (e.g., PageRank, connected-component analysis, node eccentricity, etc.). The software title “TripleGraph” is a graph analysis toolkit, which uses an RDF triplestore as its backend for creating, manipulating, mining, and programming with large scale property graphs. It allows users to run various graph mining algorithms easily. User can import edgelist-formatted (homogeneous graph) or JSON-formatted graph (property graph) into the RDF triplestore using the provided tool and perform various analysis such as (1) Node/edge retrieval and manipulation, (2) Pathfinding between two given nodes, (3) Running graph mining algorithms (PageRank/Personalized PageRank, Single Source Shortest Path/Multi-Source Shortest Path, Connected Component, Node Eccentricity, Peer Pressure Clustering). It supports standard graph data format and works with a standard SPARQL endpoint like Jena Fuseki. It allows users to perform online graph analytic processing and graph mining on the same platform (a triplestore).

Sangkeun, MattLee↗

Foliar isotopic and elemental biochemistry and leaf mass per area (LMA), Parque Natural Metropolitano, Panama, 2022

Foliar N and C isotope composition, bulk elemental N and C composition, and leaf mass per area (LMA) for leaves sampled from the Parque Natural Metropolitano (PNM), Panama, from January to April 2022 are presented. Measurements were made on leaves from 17 different tree, shrub and liana species, from sunlit canopy and understory locations on 8 vertical profiles. Full sample details and leaf area index (LAI) from the vertical profiles at PNM are also included in the data package. The aim of this measurement campaign was two-fold: to improve our understanding of the vertical variation in leaf-level water use efficiency, and to improve models which can predict leaf traits from leaf contact spectral measurements. Biochemistry data and sample metadata are presented in .csv files. The original isotopic data report, which includes details about standards and data accuracy, is provided in .xlsx format. Data and metadata meet the ESS-DIVE reporting format requirements for file level metadata (FLMD) and comma separated values (csv). The protocol details are provided as pdf documents. In addition to foliar biochemistry data reported here these samples were also used for measurement of leaf gas exchange, and leaf optical properties. These data can be linked using the unique sample ID and are provided in separate data packages (NGT0192 and NGT0193).

54 ENVIRONMENTAL SCIENCES↗

Ka-Band ARM Zenith Radar Corrections (KAZRCOR, KAZRCFRCOR) Value-Added Products

The Ka-Band Atmospheric Radiation Measurement (ARM) Zenith Radar Corrections (KAZRCOR) and KA-Band ARM Zenith Radar CF-Radial, Corrected (KAZRCFRCOR) value-added products (VAPs) perform several corrections to the ingested KAZR moments and also create a significant detection mask for each radar mode. The VAPs compute gaseous attenuation as a function of time and radial distance from the radar antenna, based on ambient meteorological observations, and correct observed reflectivities for that effect. Mean Doppler velocities are dealiased to correct velocities whose magnitudes exceed the radar’s Nyquist velocity. Input KAZR data fields are passed through to the KAZRCOR or KAZRCFRCOR output files, in their native time and range coordinates. Complementary corrected reflectivity and velocity fields are provided, along with a mask of significant detections and a number of data quality flags. This report covers the KAZRCOR VAP as applied to the original KAZR radars and the upgraded KAZR2 radars. Originally, prior to late 2019, there were two separate code bases for the different radar versions. Following the harmonization of KAZR and KAZR2 data formats in 2019, only a single code base is required. The new combined KAZR and KAZR2 code base is called the KAZRCFRCOR VAP. The ‘cfr portion of the VAP name refers to the Radial Climate and Forecasting data format standards that are used in these data sets. Throughout this report, references to ‘KAZRCOR’ should be taken to apply to the ‘KAZRCFRCOR’ VAP as well unless there is an explicit statement to the contrary.

54 ENVIRONMENTAL SCIENCES↗

Transfer Learning for HVAC System Fault Detection

Faults in HVAC systems degrade thermal comfort and energy efficiency in buildings and have received significant attention from the research community, with data driven methods gaining in popularity. Yet the lack of labeled data, such as normal versus faulty operational status, has slowed the application of machine learning to HVAC systems. In addition, for any particular building, there may be an insufficient number of observed faults over a reasonable amount of time for training. To overcome these challenges, we present a transfer methodology for a novel Bayesian classifier designed to distinguish between normal operations and faulty operations. The key is to train this classifier on a building with a large amount of sensor and fault data (for example, via simulation or standard test data) then transfer the classifier to a new building using a small amount of normal operations data from the new building. We demonstrate a proof-of-concept for transferring a classifier between architecturally similar buildings in different climates and show few samples are required to maintain classification precision and recall.

transfer learning, Building HVAC, Bayesian framewo↗

WetNet operations

WetNet is an interdisciplinary Earth science data analysis and research project with an emphasis on the study of the global hydrological cycle. The project goals are to facilitate scientific discussion, collaboration, and interaction among a selected group of investigators by providing data access and data analysis software on a personal computer. The WetNet system fulfills some of the functionality of a prototype Product Generation System (PGS), Data Archive and Distribution System (DADS), and Information Management System for the Distributed Active Archive Center. The PGS functionality is satisfied in WetNet by processing the Special Sensor Microwave/Imager (SSM/I) data into a standard format (McIDAS) data sets and generating geophysical parameter Level II browse data sets. The DADS functionality is fulfilled when the data sets are archived on magneto optical cartridges and distributed to the WetNet investigators. The WetNet data sets on the magneto optical cartridges contain the complete WetNet processing, catalogue, and menu software in addition to SSM/I orbit data for the respective two week time period.

Goodman, H. Michael↗

An interactive environment for the analysis of large Earth observation and model data sets

We propose to develop an interactive environment for the analysis of large Earth science observation and model data sets. We will use a standard scientific data storage format and a large capacity (greater than 20 GB) optical disk system for data management; develop libraries for coordinate transformation and regridding of data sets; modify the NCSA X Image and X Data Slice software for typical Earth observation data sets by including map transformations and missing data handling; develop analysis tools for common mathematical and statistical operations; integrate the components described above into a system for the analysis and comparison of observations and model results; and distribute software and documentation to the scientific community.

Bowman, Kenneth P.↗

Role of formats in the life cycle of data

This paper's perspective is based on the author's experience generating, analyzing, archiving, and distributing data obtained from satellites, and on the experience gained in data modeling and the development of standards for data understanding under the Consultative Committee for Space Data Systems (CCSDS). Data formats are used to represent all information in digital form, and thus play a major role in all interchanges and access to this information. The need to more efficiently manage and process rapidly growing quantities of data, and to preserve the information contained therein, continue to drive a great interest in data formats. The purpose of this paper is to examine the role of formats as they support the use of data within a space agency. The life-cycle identified is only one of many variations that would be recognized by those familiar with the 'space business', however it is expected that most of the issues raised will be pertinent to other 'space business' life cycles and to other 'non-space' disciplines as well.

Sawyer, Don↗

An interactive environment for the analysis of large Earth observation and model data sets

We propose to develop an interactive environment for the analysis of large Earth science observation and model data sets. We will use a standard scientific data storage format and a large capacity (greater than 20 GB) optical disk system for data management; develop libraries for coordinate transformation and regridding of data sets; modify the NCSA X Image and X DataSlice software for typical Earth observation data sets by including map transformations and missing data handling; develop analysis tools for common mathematical and statistical operations; integrate the components described above into a system for the analysis and comparison of observations and model results; and distribute software and documentation to the scientific community.

Bowman, Kenneth P.↗

"Sensor Web Evolution - Webs of Webs for NASA Science - Focus on small Uninhabited Aerial Systems (sUAS)"

This paper will describe the evolution of information collection, derivation and delivery mechanisms in webs of NASA sensor webs, with a focus on recent advancements in small Uninhabited Aerial Systems (sUAS). I will discuss the movement to "Fog Computing", also known as Edge Computing. Fog Computing facilitates the distribution of common operations and networking between edge devices and cloud computing facilities, optimizing the production of actionable intelligence. Initially, sUASs utilized onboard data collection as standard, with minimal data downloaded directly. Information products were derived in conventional computational environments, generally desk top computers, and information products made available to the Science Community in weeks or months. With the increased availability, and increasingly lower costs, of beyond line of sight (BLOS) satellite based communication, transmission rates and data volumes increased, and processing migrated to Cloud based services. Contemporary sUASs are moving some of that information product derivation to on vehicle services, and are creating a distributed Cloud/Fog environment. I will describe the technological advances that have made this possible, including low power multi-core Central Processing Units (CPU), and, more recently, the availability of high end Graphical Processing Units (GPU) that consume only a few watts. Intelligent system software, leveraging these hardware advances, finally allows for information product generation on-board, rather than simple data collection. Additionally, intelligent flight control systems now support mutual vehicle to vehicle collaboration, allowing sUASs to create ad-hoc sensor webs on demand, as required. Also discussed will be the lessons learned by the Authors' development of data systems for NASA's large High Altitude Long Endurance (HALE) UASs like Predator and Global Hawk, and how those lessons are being applied to sUAS development. This paper will focus on application, rather a deep dive into the technology, and will highlight improving data management through these new technologies.

Sensor Web↗

UASs in the VOG/Edge/FOG Sensor Web Environment

This paper will describe the evolution of information collection, derivation and delivery mechanisms in sensor webs utilizing Uninhabited Aerial Systems (UAS).We will discuss the movement to "Fog Computing", also known as Edge Computing. Fog Computing facilitates the distribution of common operations and networking between edge devices and cloud computing facilities, optimizing the production of actionable intelligence. Initially, UASs utilized onboard data collection as standard, with minimal data downloaded directly. Information products were derived in conventional computational environments, generally desk top computers, and information products made available to the Science Community in weeks or months. With the increased availability, and increasingly lower costs, of beyond line of sight (BLOS) satellite based communication, transmission rates and data volumes increased, and processing migrated to Cloud based services. Contemporary UASs are moving some of that information product derivation to on vehicle services, and are creating a distributed Cloud/Fog environment. The Author will describe the technological advances that have made this possible, including low power multi-core Central Processing Units (CPU), and, more recently, the availability of high end Graphical Processing Units (GPU) that consume only a few watts. Intelligent system software, leveraging these hardware advances, finally allows for information product generation on-board, rather than simple data collection. Additionally, intelligent flight control systems now support mutual vehicle to vehicle collaboration, allowing UASs to create ad-hoc sensor webs on demand, as required. Also discussed will be the lessons learned by the Authors' development of data systems for NASA's large High Altitude Long Endurance (HALE) UASs like Predator and Global Hawk, and how those lessons are being applied to other UAS development This paper will focus on applications, rather a deep dive into the technology, and will highlight improving data management through these new technologies.

UAS↗

Spaceflight Environmental-Telemetry Data for Biological Science

There is a critical need for better access and visualization of spaceflight environmental telemetry and mission hardware data from sensors including relative humidity, carbon dioxide, oxygen, radiation, airflow, temperature, acceleration, and acoustics. Under the stewardship of the Ames Life Sciences Data Archive (ALSDA) and GeneLab, an effort is underway to consolidate, normalize and provide accessibility of archived mission environmental data and hardware information, with the purpose of providing important context to biological data. This effort is necessary to provide scientific context of its impact upon biological and biomedical data from spaceflight missions and experiments (genomic, metagenomic, gene expression, proteomic, metabolomic, physiological, phenomics, behavioral; tabular, imaging, video). Environmental spaceflight data is derived from dozens of sources, with various formats, and in the past year a pipeline is in development to collect, curate and present this data efficiently. In the upcoming year, a new Data Visualization Portal will utilize the standardized pipeline data to provide easy user access to compare parameters and environmental conditions between missions, locations, subjects, and durations. Environmental and hardware data enables broad accessibility and analytics, without the need for advanced data informatic expertise. Familiarity with the capabilities and limitations of a variety of existing hardware/tools is a strength that could be applied to creation of improved hardware for future ecosystems on the Moon and Mars. The intention is to make biological and environmental telemetry data maximally open-access and FAIR (findable, accessible, interoperable, reusable) for data mining-informatic approaches to support knowledge discovery necessary for low Earth orbit, cis-Lunar, Mars transit, and Mars surface missions.

Danielle K. Lopez↗

RadLab: A Comprehensive Database and Graphical and Programming Interfaces for Biologically Relevant Space Radiation Data

RadLab, a new component of the NASA Open Science Data Repository (OSDR), comprises a database of radiation measurements relevant to space biology, and visual and programmatic interfaces for interrogation and retrieval of these data. The attributes of data available through RadLab include spacecraft, types of radiation sensing instruments, locations within the spacecraft (e.g. modules of the ISS), associated celestial bodies, trajectories, and spacecraft coordinates. The application programming interface (API) implements a request syntax for retrieval of timestamped data filtered by various combinations of such attributes; the graphical user interface (GUI) extends this functionality with visualizations, such as spacecraft schematics, time series plots, geospatial visualizations, and provides easy means to iteratively refine search parameters, inspect the data on the fly, and download target subsets of these data. The release of RadLab currently available to the public contains datasets provided by US and international collaborators and focuses on data recorded on the ISS. Investigators from multiple countries, including the US, Canada, Germany, Bulgaria, Hungary, Italy, Japan, Russia and the Czech Republic, have committed to provide data from their instruments in and beyond low Earth orbit; RadLab will also soon expand to include past (e.g. Shuttle and Mir) and future (e.g. Artemis) data. RadLab will provide a comprehensive, dynamic compendium of space radiation data, enabling the scientific community to perform analyses of data from multiple detectors and to determine the radiation environment of research missions and experiments, both via programmatic retrieval of these data and through the graphical analysis toolkit. The RadLab Working Group has been formed to foster collaborations among data contributors and users, to identify data sources, to put in place standards for data harmonization, and to guide the development of the platform, with the goal to establish the use of RadLab in space radiation research and to advance our understanding of the space radiation environment in human habitats.

radiation↗