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At least 145 records · Page 8

Tractometry of the Human Connectome Project: resources and insights

The Human Connectome Project (HCP) has become a keystone dataset in human neuroscience, with a plethora of important applications in advancing brain imaging methods and an understanding of the human brain. We focused on tractometry of HCP diffusion-weighted MRI (dMRI) data. We used an open-source software library (pyAFQ; https://yeatmanlab.github.io/pyAFQ) to perform probabilistic tractography and delineate the major white matter pathways in the HCP subjects that have a complete dMRI acquisition (n = 1,041). We used diffusion kurtosis imaging (DKI) to model white matter microstructure in each voxel of the white matter, and extracted tract profiles of DKI-derived tissue properties along the length of the tracts. We explored the empirical properties of the data: first, we assessed the heritability of DKI tissue properties using the known genetic linkage of the large number of twin pairs sampled in HCP. Second, we tested the ability of tractometry to serve as the basis for predictive models of individual characteristics (e.g., age, crystallized/fluid intelligence, reading ability, etc.), compared to local connectome features. To facilitate the exploration of the dataset we created a new web-based visualization tool and use this tool to visualize the data in the HCP tractometry dataset. Finally, we used the HCP dataset as a test-bed for a new technological innovation: the TRX file-format for representation of dMRI-based streamlines. We released the processing outputs and tract profiles as a publicly available data resource through the AWS Open Data program's Open Neurodata repository. We found heritability as high as 0.9 for DKI-based metrics in some brain pathways. We also found that tractometry extracts as much useful information about individual differences as the local connectome method. We released a new web-based visualization tool for tractometry—“Tractoscope” (https://nrdg.github.io/tractoscope). We found that the TRX files require considerably less disk space-a crucial attribute for large datasets like HCP. In addition, TRX incorporates a specification for grouping streamlines, further simplifying tractometry analysis.

59 BASIC BIOLOGICAL SCIENCES↗

Open-Source Science-led Development of the AOS Mission Science Data System (SDS)

The Earth System Observatory (ESO) Atmosphere Observing System (AOS) mission will provide space-based and suborbital observations of collocated cloud, dynamic, precipitation and aerosol processing leading to improved weather, air quality, and climate predictions. The AOS Science Data System (SDS) will be a system of systems developed within the Cloud to manage the research and operational processing of AOS mission orbital and suborbital sensors and curate these data for reprocessing (e.g., in near real-time or by collection) and transfer them to a NASA Distributed Active Archive Center (DAAC) for long-term storage. Further, AOS SDS will follow guidelines provided by NASA Earth Science Data Systems (ESDS) program including standard conventions for data file formats, naming, and metadata to improve data interoperability, interpretability, usability, discovery, provenance, and spatiotemporal representativeness. The AOS mission follows NASA’s lead in making a commitment to Open-Source Science (OSS) including the sharing of data, software, and knowledge in an open and timely manner. Each of the AOS SDS system components will be developed with open-source concepts including components of SDS itself as well as AOS mission algorithms. Further, the AOS SDS assumes the role to lead and facilitate OSS activities for the AOS mission. This presentation describes the framework of the AOS SDS and its integral part in facilitating OSS within the AOS mission.

David M. Giles↗

Open-Source Science-led Development of the Atmosphere Observing System (AOS) Mission Science Data System (SDS)

The Earth System Observatory (ESO) Atmosphere Observing System (AOS) mission will provide space-based and suborbital observations of collocated cloud, dynamic, precipitation and aerosol processing leading to improved weather, air quality, and climate predictions. The AOS Science Data System (SDS) will be a system of systems developed within the Cloud to manage the research and operational processing of AOS mission orbital and suborbital sensors and curate these data for reprocessing (e.g., in near real-time or by collection) and transfer them to a NASA Distributed Active Archive Center (DAAC) for long-term storage. Further, AOS SDS will follow guidelines provided by NASA Earth Science Data Systems (ESDS) program including standard conventions for data file formats, naming, and metadata to improve data interoperability, interpretability, usability, discovery, provenance, and spatiotemporal representativeness. The AOS mission follows NASA’s lead in making a commitment to Open-Source Science (OSS) including the sharing of data, software, and knowledge in an open and timely manner. Each of the AOS SDS system components will be developed with open-source concepts including components of SDS itself as well as AOS mission algorithms. Further, the AOS SDS assumes the role to lead and facilitate OSS activities for the AOS mission. This presentation describes the framework of the AOS SDS and its integral part in facilitating OSS within the AOS mission.

David Giles↗

Aerodynamic characteristics of sixteen electric, hybrid, and subcompact vehicles

An elementary electric and hybrid vehicle aerodynamic data base was developed using data obtained on sixteen electric, hybrid, and sub-compact production vehicles tested in the Lockheed-Georgia low-speed wind tunnel. Zero-yaw drag coefficients ranged from a high of 0.58 for a boxey delivery van and an open roadster to a low of about 0.34 for a current four-passenger proto-type automobile which was designed with aerodynamics as an integrated parameter. Vehicles were tested at yaw angles up to 40 degrees and a wing weighting analysis is presented which yields a vehicle's effective drag coefficient as a function of wing velocity and driving cycle. Other parameters investigated included the effects of windows open and closed, radiators open and sealed, and pop-up headlights. Complete six-component force and moment data are presented in both tabular and graphical formats. Only limited commentary is offered since, by its very nature, a data base should consist of unrefined reference material. A justification for pursuing efficient aerodynamic design of EHVs is presented.

Kurtz, D. W.↗

NASA Power: Global Solar Insolation, Meteorological Parameter Data, and Web Services to Support Sustainable Building Design and Operations

The buildings industry is currently striving to adopt green solutions to make infrastructure more energy-efficient in order to meet the 2050 net-zero climate goals. This planning requires reliable environmental datasets that are crucial in designing, building, and maintaining our world’s-built environment, as well as other energy-related processes and investments. This webinar for the National Institute of Building Sciences provides an overview of NASA’s Prediction Of Worldwide Energy Resources (POWER) Project that informs decision-making and development for sustainable building design and operations by enabling public open discovery, efficient access, and convenient distribution of NASA’s Earth Observations and global atmospheric model datasets. POWER’s datastore is comprised of solar radiation and surface meteorology parameters, spanning nearly 40 years of hourly data, that are easily accessible via several access methods and tools to support three focus areas: 1) renewable energy deployment and management, 2) sustainable infrastructure, and 3) agroclimatology applications. POWER and NASA Earth Science both plan future data parameters, updated tools, and improved observations that could directly support U.S. and international sustainable development goals, climate strategies, and building information modeling. To this end, solar data from several NASA projects and meteorological data from NASA assimilation models have already been reformatted and disseminated to the public via a user-friendly web GIS-enabled based data portal through the POWER Project. POWER data is analysis-ready and accessible through an Application Programming Interface (API), ArcGIS Image Services, and the project’s Data Access Viewer enhanced (DAVe), an interactive online tool. The POWER DAVe also features data consistent with ASHRAE Climate Design Conditions and has developed web image services showing Building Climate Zones and their variability. Through those tools, the data can be downloaded into multiple formats that support the infrastructure community, including CSV and Energy Plus Weather (EPW). POWER’s entire data product catalog is available through Amazon Web Services (AWS) Open Data Registry (ODR) via a free and publicly accessible Simple Storage Service (S3). This webinar provides a full overview of the NASA POWER Project's data and services developed in collaboration with the sustainable infrastructure community. Examples of how the renewable energy and building communities have utilized POWER data products to make decisions and a preview of future data product expansion, including climate projections, and web services will also be provided. Additionally, use case stories from our broad community of users will be presented.

Paul W. Stackhouse↗

Realism of Lagrangian Large Eddy Simulations Driven by Reanalysis Meteorology: Tracking a Pocket of Open Cells Under a Biomass Burning Aerosol Layer

An approach to drive Lagrangian large eddy simulation (LES) of boundary layer clouds with reanalysis data is presented and evaluated using satellite (Spinning Enhanced Visible and Infrared Imager, SEVIRI) and aircraft (Cloud-Aerosol-Radiation Interactions and Forcing, CLARIFY) measurements. The simulations follow trajectories of the boundary layer flow. They track the formation and evolution of a pocket of open cells (POC) underneath a biomass burning aerosol layer in the free troposphere. The simulations reproduce the evolution of observed stratocumulus cloud morphology, cloud optical depth, and cloud drop effective radius, and capture the timing of the cloud state transition from closed to open cells seen in the satellite imagery on the three considered trajectories. They reproduce a biomass burning aerosol layer identified by the in-situ aircraft measurements above the inversion of the POC. Entrainment of aerosol from the biomass burning layer into the POC is limited to the extent of having no impact on cloud- or boundary layer properties, in agreement with the CLARIFY observations. The two-moment bin microphysics scheme used in the simulations reproduces the in-situ cloud microphysical properties reasonably well. A two-moment bulk microphysics scheme reproduces the satellite observations in the non-precipitating closed-cell state, but overestimates liquid water path and cloud optical depth in the precipitating open-cell state due to insufficient surface precipitation. A boundary layer cold and dry bias occurring in LES can be counteracted by reducing the grid aspect ratio and by tightening the large scale wind speed nudging towards the surface.

54 ENVIRONMENTAL SCIENCES↗

Dynamic STEM-EELS for single-atom and defect measurement during electron beam transformations

This study introduces the integration of dynamic computer vision–enabled imaging with electron energy loss spectroscopy (EELS) in scanning transmission electron microscopy (STEM). This approach involves real-time discovery and analysis of atomic structures as they form, allowing us to observe the evolution of material properties at the atomic level, capturing transient states traditional techniques often miss. Rapid object detection and action system enhances the efficiency and accuracy of STEM-EELS by autonomously identifying and targeting only areas of interest. This machine learning (ML)–based approach differs from classical ML in that it must be executed on the fly, not using static data. We apply this technology to V-doped MoS 2 , uncovering insights into defect formation and evolution under electron beam exposure. This approach opens uncharted avenues for exploring and characterizing materials in dynamic states, offering a pathway to increase our understanding of dynamic phenomena in materials under thermal, chemical, and beam stimuli.

47 OTHER INSTRUMENTATION↗

HopPyBar

HopPyBar is a python program to import, analyze, and export split-Hopkinson pressure bar (SHPB, also known as Kolsky bar) data. Traditional analysis offers a black box approach, where input data is converted to analyzed output by performing a series of calculations without user involvement. This program serves as a developmental platform to "white box" the data analysis process. Data streams can be captured (in-situ) to enable advanced or unconventional analyses, statistics, and comparisons. Additionally, the program is geared towards the standardized forms of input and output used at LANL to streamline analysis, but the open nature of the program makes additional input/output schemes straightforward to add. General workflow will import SHPB data in one of a number of formats, identify relevant portions of data signals, and convert to stress-strain-strain rate to show material behavior as a function of dynamic testing.

Morrow, Benjamin↗

Stoichiometry of the large conductance bacterial mechanosensitive channel of E. coli. A biochemical study

MscL, a 15 kDa transmembrane protein, is the only component involved in the formation of a 3 nS channel in the inner membrane of Escherichia coli that opens in response to mechanical or osmotic stress. While previous data had suggested that the functional MscL complex might be a hexamer, a recent crystallographic study of the MscL homologue from M. tuberculosis reveals a pentameric structure. The present work further examines the stoichiometry of the E. coli MscL using a variety of biochemical approaches. Detergent-purified 6His-MscL in solution and MscL in the membrane could be chemically crosslinked with the products displaying ladderlike patterns on SDS gels. Three crosslinking agents (EDC, DMS, and DMA) used at saturating concentrations invariably generated pentamers as the largest product. DSS produced additional bands corresponding to larger complexes although the pentamer band appeared to be the predominant product at high levels of crosslinker. It is not clear whether these extra bands reflect a difference in the crosslinking chemistry of DSS or whether its spacer arm is the longest of those used, or a combination of both facts. For the detergent-solubilized 6His-MscL both sedimentation equilibrium and gel chromatography showed the presence of multiple species. Thus the longer spacer arm could permit both intra- and intercomplex linkages. Nonetheless, the patterns obtained with all agents are consistent with and strongly suggest a pentameric organization for the MscL channel. Expression of MscL as genetically engineered double or triple subunit tandems yields low numbers of functional channels as compared to expressed monomers. The double-tandem assemblies must have an even number of subunits and crosslinking in the membrane confirmed hexamerization. Gel chromatography clearly demonstrated that the channels formed from the double tandems were larger than those formed from WT MscL, consistent with the native channel being pentameric. The observation that both double and triple tandems form channels of normal conductance implies that the pentameric assembly is to some degree independent of the number of subunit repeats in the polypeptide precursor. The channel is thus a pentameric core with the 'extra' subunits left out of the functional complex. From sedimentation equilibrium and size-exclusion chromatography, we also conclude that MscL complexes are not in a dynamic equilibrium with monomers, but are pre-assembled; and thus, their gating properties must result from changes in the conformation of the entire complex induced by the mechanical stress.

NASA Discipline Cell Biology↗

The Okhotsk Sea Kashevarov Bank Polynya: Its Dependence on Diurnal and Fortnightly Tides and its Initial Formation

Open water areas within the sea ice (polynyas) are sources of intense heat exchange between the ocean and the atmosphere. In this paper, we used microwave and visible/infrared satellite data together with a sea ice model to investigate the polynya opening mechanisms. The satellite data and the model show significant agreement and prove that tides play an active role in the polynya dynamics.

Martin, Seelye↗

Data Access Services that Make Remote Sensing Data Easier to Use

This slide presentation reviews some of the processes that NASA uses to make the remote sensing data easy to use over the World Wide Web. This work involves much research into data formats, geolocation structures and quality indicators, often to be followed by coding a preprocessing program. Only then are the data usable within the analysis tool of choice. The Goddard Earth Sciences Data and Information Services Center is deploying a variety of data access services that are designed to dramatically shorten the time consumed in the data preparation step. On-the-fly conversion to the standard network Common Data Form (netCDF) format with Climate-Forecast (CF) conventions imposes a standard coordinate system framework that makes data instantly readable through several tools, such as the Integrated Data Viewer, Gridded Analysis and Display System, Panoply and Ferret. A similar benefit is achieved by serving data through the Open Source Project for a Network Data Access Protocol (OPeNDAP), which also provides subsetting. The Data Quality Screening Service goes a step further in filtering out data points based on quality control flags, based on science team recommendations or user-specified criteria. Further still is the Giovanni online analysis system which goes beyond handling formatting and quality to provide visualization and basic statistics of the data. This general approach of automating the preparation steps has the important added benefit of enabling use of the data by non-human users (i.e., computer programs), which often make sub-optimal use of the available data due to the need to hard-code data preparation on the client side.

Lynnes, Christopher↗

Open Chemistry, JupyterLab, REST, and quantum chemistry

Quantum chemistry must evolve if it wants to fully leverage the benefits of the internet age, where the worldwide web offers a vast tapestry of tools that enable users to communicate and interact with complex data at the speed and convenience of a button press. The Open Chemistry project has developed an open-source framework that offers an end-to-end solution for producing, sharing, and visualizing quantum chemical data interactively on the web using an array of modern tools and approaches. These tools build on some of the best open-source community projects such as Jupyter for interactive online notebooks, coupled with 3D accelerated visualization, state-of-the-art computational chemistry codes including NWChem and Psi4, and emerging machine learning and data mining tools such as ChemML and ANI. They offer flexible formats to import and export data, along with approaches to compare computational and experimental data.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Passive Microwave Signatures and Retrieval of High-Latitude Snowfall Over Open Oceans and Sea Ice: Insights From Coincidences of GPM and CloudSat Satellites

This article studies changes in microwave signals of oceanic snowfall in response to the formation of snow-covered sea ice using active and passive coincident data from the radar and radiometer onboard the CloudSat and the global precipitation measurement satellites. Using reanalysis data of liquid and ice water path as well as satellite retrievals of sea ice snow-cover depth, spectral regions are determined over which the snowfall signatures are likely to be obscured or falsely detected. Relying on an a priori database populated with the active–passive coincidences, a Bayesian snowfall retrieval algorithm is presented that links a k -nearest neighbor matching with the inverse Gaussian estimator used in the Goddard profiling algorithm. Without relying on any ancillary data of air temperature, the results demonstrate that over open oceans (sea ice), we can passively retrieve the CloudSat active snowfalls with a true positive rate of 92 (85%) and the root mean squared error of 0.24 (0.15) mm per h.

Sajad Vahedizade↗

OASIS: Open-Source AI Software Infrastructure for Science-SBIR Phase I

OASIS: Open source AI Software Infrastructure for Science is developed for researchers in the scientific domain. OASIS provides a data API to ingest and serve scientific data formats and annotations within AI workflows. It delivers a unique integration of features such as coupling of data to AI models, scalable training, cloud deployment into a cohesive web and command-line interface, and state-of-the-art techniques to debug and enhance AI models.

Chaudhary, Aashish↗

How GES DISC is Opening Doors to Open Science

The NASA Goddard Earth Sciences Data and Information Services Center (GES DISC) is one of 12 NASA Earth Observing System data centers that document, process, archive, and distribute data from Earth science missions and related projects. GES DISC hosts numerous Earth Science products through various data formats and supports their access with several programming and website tools. The User Needs team at GES DISC is responsible for producing tutorials and resources to teach these tools, collecting and engaging with user feedback, and collaborating with other NASA data centers to enable science creation for everyone. This poster presentation outlines how GES DISC, and the User Needs team, are committed to enabling open science.

Christopher Battisto↗

How GES DISC is Opening Doors to Open Science

The NASA Goddard Earth Sciences Data and Information Services Center (GES DISC) is one of 12 NASA Earth Observing System data centers that document, process, archive, and distribute data from Earth science missions and related projects. GES DISC hosts numerous Earth Science products through various data formats and supports their access with several programming and website tools. The User Needs team at GES DISC is responsible for producing tutorials and resources to teach these tools, collecting and engaging with user feedback, and collaborating with other NASA data centers to enable science creation for everyone. This poster presentation outlines how GES DISC, and the User Needs team, are committed to enabling open science.

Christopher Battisto↗

DayCent data and results for "Robust paths to net greenhouse gas mitigation and negative emissions via advanced biofuels"

DayCent data and results for:J. L. Field, T. L. Richard, E. A. Smithwick, H. Cai, M. S. Laser, D. S. LeBauer, S. P. Long, K. Paustian, Z. Qin, J. J. Sheehan, P. Smith, M. Q. Wang, L. R. Lynd, Robust paths to net greenhouse gas mitigation and negative emissions via advanced biofuels. Proceedings of the National Academy of Sciences (2020). https://doi.org/10.1073/pnas.1920877117 This zip file contains a UNIX-format DayCent model executable, input files, automation code, and associated directory structure necessary to re-produce the DayCent analysis underlying the manuscript. The main script 'autodaycent.py' (written for Python 2.7) opens an interactive command line routine that facilitates:* Calibrating the DayCent pine growth model.* Initializing DayCent for a set of case studies sites.* Executing an ensemble of model runs representing case study site reforestation, grassland restoration, or conversion to switchgrass cultivation. * Results analysis & generation of manuscript Fig. 3. Note that the interactive analysis code requires that all input files to be contained in the directory structure as uploaded, without modification. Executable versions of the DayCent model (https://www.nrel.colostate.edu/projects/daycent/) compatible with other operating systems are available upon request.Please send questions/comments to John.L.Field@gmail.com

Agro-ecosystem function and prediction↗

Efficient Data Management in Neutron Scattering Data Reduction Workflows at ORNL

Oak Ridge National Laboratory (ORNL) experimental neutron science facilities produce 1.2 TB a day of raw event-based data that is stored using the standard metadata-rich NeXus schema built on top of the HDF5 file format. Performance of several data reduction workflows is largely determined by the amount of time spent on the loading and processing algorithms in Mantid, an open-source data analysis framework used across several neutron sciences facilities around the world. The present work introduces new data management algorithms to address identified input output (I/O) bottlenecks on Mantid. First, we introduce an in-memory binary-tree metadata index that resemble NeXus data access patterns to provide a scalable search and extraction mechanism. Second, data encapsulation in Mantid algorithms is optimally redesigned to reduce the total compute and memory runtime footprint associated with metadata I/O reconstruction tasks. Results from this work show speed ups in wall-clock time on ORNL data reduction workflows, ranging from 11% to 30% depending on the complexity of the targeted instrument-specific data. Nevertheless, we highlight the need for more research to address reduction challenges as experimental data volumes increase.

Godoy, William↗