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All sourcesNASA NTRSDOE OSTI
NASA NTRSDate not supplied

The Radiation Biology Ontology: A New Tool Supporting FAIR Principles Across Radiation Biology Facilitating Data Discovery and Integration

Development of the Radiation Biology Ontology (RBO) was motivated by the need for a comprehensive, well-structured ontology for encoding radiation biology metadata. The primary use-cases were archiving data in the STORE database (https://www.storedb.org/), the repository for the RadoNorm Project, and in GeneLab (https://genelab.nasa.gov), NASA’s ‘omics database. The scope of radiobiology research ranges from physics to radiation oncology to socio-legal studies; no existing ontology has the necessary breadth or depth. In addition, a formal ontology has the advantage of being usable for machine learning and, importantly, for tasks like data integration, knowledge extraction from the scientific literature and for query extension and data classification. Standardisation of metadata is one of the primary objectives of the FAIR principles for open data; RBO is an important landmark for FAIR radiation biology data.

ontology↗
NASA NTRSDate not supplied

Data Sharing in Radiobiology; Towards FAIR

The value of scientific data depends on their findability, accessibility, integrability and reusability according to the FAIR principles. Together with the sustainability of data preservation and access, these principles underpin the long term benefits of scientific research. Within the domain of radiobiology we have a huge array of data types, themes and complexities which make standardisation of metadata, data structure and data integration very challenging. Moreover, it is clear that, for example, in the area of disaster preparedness, the ready discovery and availability of multiple types of data, for example on biological effects of exposure, climatology, ecology, human behavioural and attitudinal studies, is important for an integrated scientific approach. Because these data are spread over many databases, journal supplementary information resources and even the computers of the investigators, their discovery and reuse can be challenging. Despite exhortations from funding agencies and scientific institutions over the past two decades there is still a serious deficit in the willingness and in some cases the ability of investigators to share data, and although much may not be formally „Public domain“, information about the existence of the data, their metadata, and how to obtain them should always be available. We report the progress of work on three databases, the STORE and the NASA GeneLab and LSDA repositories to leverage the Radiation Biology Ontology (RBO), a structured terminology for metadata that can be used by all radiation biology-relevant databases to unite federated and automated data searches across multiple databases, for example using web services, and through semantic web technologies supporting data discovery. The initial primary use-cases for RBO were archiving data in the STORE database (https://www.storedb.org/), the repository used for the RadoNorm and Pianoforte Projects among others, and in the NASA Open Science Data Repository (https://osdr.nasa.gov/bio). The scope of radiobiology research ranges from basic physics to radiation oncology to sociolegal studies; no existing ontology had the necessary breadth or depth to fulfill this need. In addition, a formal ontology has the advantage of being usable for machine learning and, importantly, for tasks like data integration, knowledge extraction from the scientific literature and for query extension and data classification. Standardisation of metadata is one of the primary objectives of the FAIR principles for open data; RBO is an important landmark for FAIR-compliant radiation biology data sharing. The RBO is developed using the open-source tools of GitHub and the OBO Foundry-led Ontology Development Kit, and published through GitHub and the NIH/NCBI BioPortal website. This initial phase of concept modeling has yielded an ontology that has more than 300 declared concepts, with more than 3500 additional concepts imported from other OBO Foundry ontologies with relevance to radiation biology (for example, concepts from the ISO standard Basic Formal Ontology, the Environment Ontology and the Gene Ontology). We welcome input into the development of RBO and encourage its adoption.

ontologies↗
NASA NTRS2023

Data Sharing in Radiation Biology: Towards FAIR

The value of scientific data depends on their findability, accessibility, integrability and reusability according to the FAIR principles. Together with the sustainability of data preservation and access, these principles underpin the long term benefits of scientific research. Within the domain of radiobiology we have a huge array of data types, themes and complexities which make standardisation of metadata, data structure and data integration very challenging. Moreover, it is clear that, for example, in the area of disaster preparedness, the ready discovery and availability of multiple types of data, for example on biological effects of exposure, climatology, ecology, human behavioural and attitudinal studies, is important for an integrated scientific approach. Because these data are spread over many databases, journal supplementary information resources and even the computers of the investigators, their discovery and reuse can be challenging. Despite exhortations from funding agencies and scientific institutions over the past two decades there is still a serious deficit in the willingness and in some cases the ability of investigators to share data, and although much may not be formally "Public domain“, information about the existence of the data, their metadata, and how to obtain them should always be available. We report the progress of work on three databases, the STORE and the NASA GeneLab and LSDA repositories to leverage the Radiation Biology Ontology (RBO), a structured terminology for metadata that can be used by all radiation biology-relevant databases to unite federated and automated data searches across multiple databases, for example using web services, and through semantic web technologies supporting data discovery. The initial primary use-cases for RBO were archiving data in the STORE database (https://www.storedb.org/), the repository used for the RadoNorm and Pianoforte Projects among others, and in the NASA Open Science Data Repository (https://osdr.nasa.gov/bio). The scope of radiobiology research ranges from basic physics to radiation oncology to sociolegal studies; no existing ontology had the necessary breadth or depth to fulfill this need. In addition, a formal ontology has the advantage of being usable for machine learning and, importantly, for tasks like data integration, knowledge extraction from the scientific literature and for query extension and data classification. Standardisation of metadata is one of the primary objectives of the FAIR principles for open data; RBO is an important landmark for FAIR-compliant radiation biology data sharing. The RBO is developed using the open-source tools of GitHub and the OBO Foundry-led Ontology Development Kit, and published through GitHub and the NIH/NCBI BioPortal website. This initial phase of concept modeling has yielded an ontology that has more than 300 declared concepts, with more than 3500 additional concepts imported from other OBO Foundry ontologies with relevance to radiation biology (for example, concepts from the ISO standard Basic Formal Ontology, the Environment Ontology and the Gene Ontology). We welcome input into the development of RBO and encourage its adoption.

ontologies↗
NASA NTRS1995

Bayes classification of interferometric TOPSAR data

We report the Bayes classification of terrain types at different sites using airborne interferometric synthetic aperture radar (INSAR) data. A Gaussian maximum likelihood classifier was applied on multidimensional observations derived from the SAR intensity, the terrain elevation model, and the magnitude of the interferometric correlation. Training sets for forested, urban, agricultural, or bare areas were obtained either by selecting samples with known ground truth, or by k-means clustering of random sets of samples uniformly distributed across all sites, and subsequent assignments of these clusters using ground truth. The accuracy of the classifier was used to optimize the discriminating efficiency of the set of features that was chosen. The most important features include the SAR intensity, a canopy penetration depth model, and the terrain slope. We demonstrate the classifier's performance across sites using a unique set of training classes for the four main terrain categories. The scenes examined include San Francisco (CA) (predominantly urban and water), Mount Adams (WA) (forested with clear cuts), Pasadena (CA) (urban with mountains), and Antioch Hills (CA) (water, swamps, fields). Issues related to the effects of image calibration and the robustness of the classification to calibration errors are explored. The relative performance of single polarization Interferometric data classification is contrasted against classification schemes based on polarimetric SAR data.

Michel, T. R.↗
NASA NTRS1982

An initial analysis of LANDSAT 4 Thematic Mapper data for the classification of agricultural, forested wetland, and urban land covers

An initial analysis of LANDSAT 4 thematic mapper (TM) data for the delineation and classification of agricultural, forested wetland, and urban land covers was conducted. A study area in Poinsett County, Arkansas was used to evaluate a classification of agricultural lands derived from multitemporal LANDSAT multispectral scanner (MSS) data in comparison with a classification of TM data for the same area. Data over Reelfoot Lake in northwestern Tennessee were utilized to evaluate the TM for delineating forested wetland species. A classification of the study area was assessed for accuracy in discriminating five forested wetland categories. Finally, the TM data were used to identify urban features within a small city. A computer generated classification of Union City, Tennessee was analyzed for accuracy in delineating urban land covers. An evaluation of digitally enhanced TM data using principal components analysis to facilitate photointerpretation of urban features was also performed.

Quattrochi, D. A.↗
NASA NTRS1989

Multi-temporal airborne synthetic aperture radar data for crop classification

This paper presents an approach to the classification of crop type using multitemporal airborne SAR data. Following radiometric correction of the data, the accuracy of a per-field crop classification reached 90 percent for three classes using data acquired on four dates. A comparable accuracy of 88 percent could be obtained for a classification of the same classes using data acquired on only two dates. Increasing the number of classes from three to seven reduced the classification accuracies to 55 percent and 69 percent when using data from two and four dates respectively.

Foody, G. M.↗
NASA NTRS1974

ASTEP user's guide and software documentation

The Algorithm Simulation Test and Evaluation Program (ASTEP) is a modular computer program developed for the purpose of testing and evaluating methods of processing remotely sensed multispectral scanner earth resources data. ASTEP is written in FORTRAND V on the UNIVAC 1110 under the EXEC 8 operating system and may be operated in either a batch or interactive mode. The program currently contains over one hundred subroutines consisting of data classification and display algorithms, statistical analysis algorithms, utility support routines, and feature selection capability. The current program can accept data in LARSC1, LARSC2, ERTS, and Universal formats, and can output processed image or data tapes in Universal format.

Gliniewicz, A. S.↗
NASA NTRS1979

Effect of the atmosphere on the classification of LANDSAT data

The author has identified the following significant results. In conjunction with Turner's model for the correction of satellite data for atmospheric interference, the LOWTRAN-3 computer was used to calculate the atmospheric interference. Use of the program improved the contrast between different natural targets in the MSS LANDSAT data of Brasilia, Brazil. The classification accuracy of sugar canes was improved by about 9% in the multispectral data of Ribeirao Preto, Sao Paulo.

Dejesusparada, N.↗
DOE OSTI2022

Exploring Legacy Document Management Systems to Increase Access to Project Data

The current Electronic Data Management System (EDMS) makes it difficult to efficiently access information in critical time frames. This project explored ways to allow Environmental Support and Services staff the ability to efficiently access documents with necessary historic information while leveraging existing data classification methods and the capabilities of EDMS.

99 GENERAL AND MISCELLANEOUS↗
NASA NTRS1997

Cluster Method Analysis of K. S. C. Image

Information obtained from satellite-based systems has moved to the forefront as a method in the identification of many land cover types. Identification of different land features through remote sensing is an effective tool for regional and global assessment of geometric characteristics. Classification data acquired from remote sensing images have a wide variety of applications. In particular, analysis of remote sensing images have special applications in the classification of various types of vegetation. Results obtained from classification studies of a particular area or region serve towards a greater understanding of what parameters (ecological, temporal, etc.) affect the region being analyzed. In this paper, we make a distinction between both types of classification approaches although, focus is given to the unsupervised classification method using 1987 Thematic Mapped (TM) images of Kennedy Space Center.

Rodriguez, Joe, Jr.↗
DOE OSTI2026

SAIL Field Campaign X-Band Precipitation Radar Seasonal Surface Hydrometeor Phase Classification Value-Added Product Report

The Surface Atmosphere Integrated Field Laboratory (SAIL) campaign generated an unprecedented, multisensory record of cold-season precipitation in the Upper Colorado River Basin (UCRB). To complement the Surface Quantitative Precipitation Estimation (SQUIRE) snow water equivalent (SWE) product derived from the Colorado State University (CSU) X-band radar, a hydrometeor phase classification data set was developed to systematically identify phase of the near-surface precipitation. The algorithm uses Corrected Moments in Antenna Coordinates (CMAC) fields with semi-supervised classification (SSC) and fuzzy-logic hydrometeor classification (FHC) methods and maps hydrometeor classes to a compact set of phase classes suitable for Quantitative Precipitation Estimation (QPE) and hydrologic applications. We used SQUIRE grid projections to mitigate beam-blockage issues by selecting the near-surface gates for each beam as well as to make it directly usable for the QPE products.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS1987

Operational use of Landsat data for timber inventory

Landsat TM data, digital elevation model (DEM) data, and field observations were used to generate a timber type/structure and land-cover strata map of the Sequoia National Forest in California, U.S. and to create a classification data set. The spectral classes were identified as 32 information classes of land cover or timber type and structure. DEM data were used for the determination of major timber specie types by topographic regions of natural occurrence. The results suggest that, for inventories over large areas, traditional per-pixel classifiers are not appropriate for TM-resolution data sets over spatially complex regions such as forest lands; either resolution must be degraded, or more context-dependent classifiers, such as the ECHO classifier described by Landgrebe (1979), must be used.

Price, Curtis V.↗
NASA NTRS1975

Automated storage and retrieval of data obtained in the Interkosmos project

The formation of a data bank and information retrieval system for scientific data is described. The stored data can be digital or documentation data. Data classification methods are discussed along with definition and compilation of the dictionary utilized, definition of the indexing scheme, and definition of the principles used in constructing a file for documents, data blocks, and tapes. Operating principles are also presented.

Ziolkovski, K.↗
DOE OSTI2022

Hybrid Quantum-Classical Neural Networks

Deep learning is one of the most successful and far-reaching strategies used in machine learning today. However, the scale and utility of neural networks is still greatly limited by the current hardware used to train them. These concerns have become increasingly pressing as conventional computers are soon expected to approach the physical limitations that will slow their performance improvements in the near future. For these reasons, scientists have begun to explore alternative computing platforms, like quantum computers, for training neural networks. In recent years, variational quantum circuits have emerged as one of the most successful approaches to quantum deep learning on noisy intermediate scale quantum devices. We propose a hybrid quantum-classical neural network architecture where each neuron is a variational quantum circuit. We empirically analyze the performance of this hybrid neural network on a series of binary classification data sets using a simulated IBM universal quantum computer and a state-of-the-art IBM universal quantum computer. On the simulated hardware, we observe that the hybrid neural network achieves around 10% higher classification accuracy and 20% better minimization of the cost function than an individual variational quantum circuit. On the quantum hardware, we observe that each model only performs well when the qubit and gate count is sufficiently small.

Arthur, Davis↗
NASA NTRS1999

Self-organizing map (SOM) of space acceleration measurement system (SAMS) data

In this paper, space acceleration measurement system (SAMS) data have been classified using self-organizing map (SOM) networks without any supervision; i.e., no a priori knowledge is assumed regarding input patterns belonging to a certain class. Input patterns are created on the basis of power spectral densities of SAMS data. Results for SAMS data from STS-50 and STS-57 missions are presented. Following issues are discussed in details: impact of number of neurons, global ordering of SOM weight vectors, effectiveness of a SOM in data classification, and effects of shifting time windows in the generation of input patterns. The concept of 'cascade of SOM networks' is also developed and tested. It has been found that a SOM network can successfully classify SAMS data obtained during STS-50 and STS-57 missions.

STS-57 Shuttle Project↗
NASA NTRS1972

A geometrical interpretation of the 2n-th central difference

Many algorithms used for data smoothing, data classification and error detection require the calculation of the distance from a point to the polynomial interpolating its 2n neighbors (n on each side). This computation, if performed naively, would require the solution of a system of equations and could create numerical problems. This note shows that if the data is equally spaced, then this calculation can be performed using a simple recursion formula.

Tapia, R. A.↗
DOE OSTI2025

TorchBraid: High-Performance Layer-Parallel Training of Deep Neural Networks with MPI and GPU Acceleration

TorchBraid is a high-performance implementation of layer-parallel training for deep neural networks (DNNs) supporting MPI-based parallelism and GPU acceleration. Layer-parallel training has been developed to overcome the serialization inherent in forward and backward propagation of DNNs that limits utilization of computational resources in the strong scaling limit. To achieve this, TorchBraid integrates the PyTorch neural network framework with the state-of-the-art XBraid time-parallel library. Furthermore, this article presents the use and performance of TorchBraid, in addition to solutions for overcoming the algorithmic challenges inherent in combining automatic differentiation with layer-parallel. Results are presented with and without GPU acceleration for the Tiny ImageNet and MNIST image classification data sets, as well as recurrent neural networks. Overall, TorchBraid enables fast training of DNNs, both in a strong and weak scaling context. In addition to the TorchBraid software, several new advances in applying layer-parallel algorithms are detailed. Integration of layer-parallel with data-parallel algorithms is presented for the first time, showing the computational advantages of the combination. Standard deep learning techniques, like batch-normalization, are developed for layer-parallel training. Finally, a new approach combining layer-parallel with spatial coarsening in order to accelerate training for 3D image classification shows roughly a 10× speedup over serial execution.

Layer-parallel↗