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At least 595 records · Page 33

A National Virtual Specimen Database for Early Cancer Detection

Access to biospecimens is essential for enabling cancer biomarker discovery. The National Cancer Institute's (NCI) Early Detection Research Network (EDRN) comprises and integrates a large number of laboratories into a network in order to establish a collaborative scientific environment to discover and validate disease markers. The diversity of both the institutions and the collaborative focus has created the need for establishing cross-disciplinary teams focused on integrating expertise in biomedical research, computational and biostatistics, and computer science. Given the collaborative design of the network, the EDRN needed an informatics infrastructure. The Fred Hutchinson Cancer Research Center, the National Cancer Institute,and NASA's Jet Propulsion Laboratory (JPL) teamed up to build an informatics infrastructure creating a collaborative, science-driven research environment despite the geographic and morphology differences of the information systems that existed within the diverse network. EDRN investigators identified the need to share biospecimen data captured across the country managed in disparate databases. As a result, the informatics team initiated an effort to create a virtual tissue database whereby scientists could search and locate details about specimens located at collaborating laboratories. Each database, however, was locally implemented and integrated into collection processes and methods unique to each institution. This meant that efforts to integrate databases needed to be done in a manner that did not require redesign or re-implementation of existing system

distributed↗

Generic, Extensible, Configurable Push-Pull Framework for Large-Scale Science Missions

The push-pull framework was developed in hopes that an infrastructure would be created that could literally connect to any given remote site, and (given a set of restrictions) download files from that remote site based on those restrictions. The Cataloging and Archiving Service (CAS) has recently been re-architected and re-factored in its canonical services, including file management, workflow management, and resource management. Additionally, a generic CAS Crawling Framework was built based on motivation from Apache s open-source search engine project called Nutch. Nutch is an Apache effort to provide search engine services (akin to Google), including crawling, parsing, content analysis, and indexing. It has produced several stable software releases, and is currently used in production services at companies such as Yahoo, and at NASA's Planetary Data System. The CAS Crawling Framework supports many of the Nutch Crawler's generic services, including metadata extraction, crawling, and ingestion. However, one service that was not ported over from Nutch is a generic protocol layer service that allows the Nutch crawler to obtain content using protocol plug-ins that download content using implementations of remote protocols, such as HTTP, FTP, WinNT file system, HTTPS, etc. Such a generic protocol layer would greatly aid in the CAS Crawling Framework, as the layer would allow the framework to generically obtain content (i.e., data products) from remote sites using protocols such as FTP and others. Augmented with this capability, the Orbiting Carbon Observatory (OCO) and NPP (NPOESS Preparatory Project) Sounder PEATE (Product Evaluation and Analysis Tools Elements) would be provided with an infrastructure to support generic FTP-based pull access to remote data products, obviating the need for any specialized software outside of the context of their existing process control systems. This extensible configurable framework was created in Java, and allows the use of different underlying communication middleware (at present, both XMLRPC, and RMI). In addition, the framework is entirely suitable in a multi-mission environment and is supporting both NPP Sounder PEATE and the OCO Mission. Both systems involve tasks such as high-throughput job processing, terabyte-scale data management, and science computing facilities. NPP Sounder PEATE is already using the push-pull framework to accept hundreds of gigabytes of IASI (infrared atmospheric sounding interferometer) data, and is in preparation to accept CRIMS (Cross-track Infrared Microwave Sounding Suite) data. OCO will leverage the framework to download MODIS, CloudSat, and other ancillary data products for use in the high-performance Level 2 Science Algorithm. The National Cancer Institute is also evaluating the framework for use in sharing and disseminating cancer research data through its Early Detection Research Network (EDRN).

Foster, Brian M.↗

The Interplanetary Network Supplement to the Fermi GBM Catalog - An AO-2 and AO-3 Guest Investigator Project

In the first two years of operation of the Fermi GBM, the 9-spacecraft Interplanetary Network (IPN) detected 158 GBM bursts with one or two distant spacecraft, and triangulated them to annuli or error boxes. Combining the IPN and GBM localizations leads to error boxes which are up to 4 orders of magnitude smaller than those of the GBM alone. These localizations comprise the IPN supplement to the GBM catalog, and they support a wide range of scientific investigations.

Hurley, K.↗

The Connection between Model Performance on the CCMVal Transport Diagnostics and Simulated Sensitivity of Ozone to Chlorine Change

The chemistry climate models that contributed simulations for past and future ozone evolution to the 2010 Scientific Assessment of Ozone Depletion were subject to extensive evaluation by the SPARC (Stratospheric Processes and their Role in Climate) CCMVal (Chemistry-Climate Model Validation) activity. The sensitivity of ozone to changes in composition and climate varies among the models, but the relationship between these variations and the model evaluations of CCMVal is not obvious. We have learned that the transport evaluation can be used to interpret the comparisons between observed and simulated columns of chlorine reservoirs, hydrochloric acid (HCl) and chlorine nitrate (ClONO2); these comparisons were part of the CCMVal evaluation of chemistry. The simulations with best performance on the transport diagnostics most faithfully reproduce the evolution and seasonal variation of the chlorine reservoirs as observed at NDACC (Network for Detection of Atmospheric Composition Change) stations (NyAlesund 78.9N, Kiruna 67.8N, Harestua 60.2N, Jungfraujoch 46.6N, Toronto 43.6N, Kitt Peak 31.9N, Izana 28.3N, Mauna Loa 19.5N, Lauder 45S and Arrival Heights 77.8S). In the simulations, the HCl in the lower stratosphere depends on total inorganic chlorine (Cly) and partitioning between HCl and ClON02. Total inorganic chlorine depends on the fractional release of chlorine from source gases, and ratio of ClON02 to HCl is inversely dependent on methane and varies quadratically with ozone. Simulated HCl from various models may agree with observations even though Cly is in error, partitioning is in error, or both. Simulated ozone sensitivity to chlorine is shown to be greater for models that produce larger values of chlorine nitrate for background chlorine levels, and vice versa. Comparisons with the NDACC data show why the models with 'best' transport have similar sensitivity to chlorine change. The realistic evolution of the simulated HCl and ClONO2 columns suggests realistic levels of Cly in the lower atmosphere. In addition, the wide range values for the sensitivity of ozone to chlorine obtained from the CCMVal simulations is explained by the wide range in lower atmospheric columns of ClONO2 and the concomitant wide range of levels for chlorine monoxide.

Douglass, Anne↗

Contribution of X/Ka VLBI to Multi-Wavelength Celestial Frame Studies

This paper is an update of Sotuela et al. (2011) which improves their simulated Gaia frame tie precision by approximately 10% by adding three additional VLBI observing sessions. Astrometry at X/Ka-band (8.4/32 GHz) using NASAs Deep Space Network has detected 466 quasars with accuracies of 200-300 micro-arc seconds. A program is underway to reduce errors by a factor of 2-3. From our sample, 245 sources have optical magnitudes V less than 20 and should also be detectable by Gaia. A covariance study using existing X/Ka data and simulated Gaia uncertainties for the 345 objects yields a frame tie precision of 10-15 micro-arc seconds (1 - sigma). The characterization of wavelength dependent systematic from extended source morphology and core shift should benefit greatly from adding X/Ka-band measurements to S/X-band (2.3/8.4 GHz) measurements thus helping to constrain astrophysical models of the wavelength dependence of positions.

galaxies↗

Clonal Selection Based Artificial Immune System for Generalized Pattern Recognition

The last two decades has seen a rapid increase in the application of AIS (Artificial Immune Systems) modeled after the human immune system to a wide range of areas including network intrusion detection, job shop scheduling, classification, pattern recognition, and robot control. JPL (Jet Propulsion Laboratory) has developed an integrated pattern recognition/classification system called AISLE (Artificial Immune System for Learning and Exploration) based on biologically inspired models of B-cell dynamics in the immune system. When used for unsupervised or supervised classification, the method scales linearly with the number of dimensions, has performance that is relatively independent of the total size of the dataset, and has been shown to perform as well as traditional clustering methods. When used for pattern recognition, the method efficiently isolates the appropriate matches in the data set. The paper presents the underlying structure of AISLE and the results from a number of experimental studies.

pattern recognition↗

Diurnal Variations of Stratospheric Ozone Measured by Ground-Based Microwave Remote Sensing at the Mauna Loa NDACC Site: Measurement Validation and GEOSCCM Model Comparison

There is presently renewed interest in diurnal variations of stratospheric and mesospheric ozone for the purpose of supporting homogenization of records of various ozone measurements that are limited by the technique employed to being made at certain times of day. We have made such measurements for 19 years using a passive microwave remote sensing technique at the Mauna Loa Observatory (MLO) in Hawaii, which is a primary station in the Network for Detection of Atmospheric Composition Change (NDACC). We have recently reprocessed these data with hourly time resolution to study diurnal variations. We inspected differences between pairs of the ozone spectra (e.g., day and night) from which the ozone profiles are derived to determine the extent to which they may be contaminated by diurnally varying systematic instrumental or measurement effects. These are small, and we have reduced them further by selecting data that meet certain criteria that we established. We have calculated differences between profiles measured at different times: morning-night, afternoon-night, and morning-afternoon and have intercompared these with like profiles derived from the Aura Microwave Limb Sounder (Aura-MLS), the Upper Atmosphere Research Satellite Microwave Limb Sounder (UARS-MLS),t he Superconducting Submillimeter-Wave Limb-Emission Sounder (SMILES), and Solar Backscatter Ultraviolet version 2 (SBUV2) measurements. Differences between averages of coincident profiles are typically less than 1.5 percent of typical nighttime values over most of the covered altitude range with some exceptions. We calculated averages of ozone values for each hour from the Mauna Loa microwave data, and normalized these to the average for the first hour after midnight for comparison with corresponding values calculated with the Goddard Earth Observing System Chemistry Climate Model (GEOSCCM). We found that the measurements and model output mostly agree to better than 1.5 percent of the midnight value, with one noteworthy exception: The measured morning-night values are significantly (2-3 percent) higher than the modeled ones from 3.2 to 1.8 hPa (approximately 39-43 km), and there is evidence that the measured values are increasing compared to the modeled values before sunrise in this region.

GEOSCCM model comparison↗

Synthetic Data Generation for 3D Mesh Prediction and Spatial Reasoning During Multi-Agent Robotic Missions

In-space assembly operations require accurate reasoning over the pose, location, and structural organization of both the autonomous agents and assembly materials. In a full six-degree-of-freedom space, an accurate understanding of the full three-dimensional structure of the object of interest greatly enriches information for pose estimation and collision planning. Current methods of predicting pose estimation require a priori understanding of the shape of the object. Additionally, visual information in the space environment is impacted by variations in contrast and illumination. Using synthetic data allows us to rapidly generate large datasets with in varying environments and lighting conditions. This work details the generation of synthetic data used to explore the use of a region-based convolutional neural networks to detect objects of interest and predict a voxel-based three-dimensional mesh in order to understand their full three-dimensional shape. This mesh provides useful spatial information during in-space assembly operations without requiring either the complexity of maintaining models over the progress of building an object or observations from multiple angles. The generated meshes are then compared to that of ground truth in order to measure its performance.

James Ecker↗

Response-Guided Community Detection: Application to Climate Index Discovery

Discovering climate indices-time series that summarize spatiotemporal climate patterns-is a key task in the climate science domain. In this work, we approach this task as a problem of response-guided community detection; that is, identifying communities in a graph associated with a response variable of interest. To this end, we propose a general strategy for response-guided community detection that explicitly incorporates information of the response variable during the community detection process, and introduce a graph representation of spatiotemporal data that leverages information from multiple variables. We apply our proposed methodology to the discovery of climate indices associated with seasonal rainfall variability. Our results suggest that our methodology is able to capture the underlying patterns known to be associated with the response variable of interest and to improve its predictability compared to existing methodologies for data-driven climate index discovery and official forecasts.

AFRICA↗