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NASA NTRS2022

Identifying Chemical Aerosol Signatures Using Optical Suborbital Observations: How Much Can Optical Properties Tell us about Aerosol Composition?

Improvements in air quality and Earth’s climate predictions require improvements of the aerosol speciation in chemical transport models, using observational constraints. Aerosol speciation (e.g., organic aerosols, black carbon, sulfate, nitrate, ammonium, dust or sea salt) is typically determined using in situ instrumentation. Continuous, routine surface network aerosol composition measurements are not uniformly widespread over the globe. Satellites, on the other hand, can provide a maximum coverage of the horizontal and vertical atmosphere but observe aerosol optical properties (and not aerosol speciation) based on remote sensing instrumentation. Combinations of satellite-derived aerosol optical properties can inform on air mass aerosol types (AMTs e.g., clean marine, dust, polluted continental). However, these AMTs are subjectively defined, might often be misclassified and are hard to relate to the critical parameters that need to be refined in models. In this paper, we derive AMTs that are more directly related to sources and hence to speciation. They are defined, characterized, and derived using simultaneous in situ gas-phase, chemical and optical instruments on the same aircraft during the Study of Emissions and Atmospheric Composition, Clouds, and Climate Coupling by Regional Surveys (SEAC4RS, US, summer of 2013). First, we prescribe well-informed AMTs that display distinct aerosol chemical and optical signatures to act as a training AMT dataset. These in situ observations reduce the errors and ambiguities in the selection of the AMT training dataset. We also investigate the relative skill of various combinations of aerosol optical properties to define AMTs and how much these optical properties can capture dominant aerosol speciation. We find distinct optical signatures for biomass burning (from agricultural or wildfires), biogenic and dust-influence AMTs. Useful aerosol optical properties to characterize these signatures are the extinction angstrom exponent (EAE), the single scattering albedo, the difference of single scattering albedo in two wavelengths, the absorption coefficient, the absorption angstrom exponent (AAE), and the real part of the refractive index (RRI). We find that all four AMTs studied when prescribed using mostly airborne in situ gas measurements, can be successfully extracted from at least three combinations of airborne in situ aerosol optical properties (e.g., EAE, AAE and RRI) over the US during SEAC4RS. However, we find that the optically based classifications for BB from agricultural fires and polluted dust include a large percentage of misclassifications that limit the usefulness of results relating to those classes. The technique and results presented in this study are suitable to develop a representative, robust and diverse source-based AMT database. This database could then be used for widespread retrievals of AMTs using existing and future remote sensing suborbital instruments/networks. Ultimately, it has the potential to provide a much broader observational aerosol data set to evaluate chemical transport and air quality models than is currently available by direct in situ measurements. This study illustrates how essential it is to explore existing airborne datasets to bridge chemical and optical signatures of different AMTs, before the implementation of future spaceborne missions (e.g., the next generation of Earth Observing System (EOS) satellites addressing Aerosol, Cloud, Convection and Precipitation (ACCP) designated observables).

Meloe S F Kacenelenbogen↗
NASA NTRSDate not supplied

Developing and Testing a Physics Guided Machine Learning NeuralNetwork to Predict Tonal Noise Emitted by a Propeller

Artificial neural networks offer a highly nonlinear and adaptive model for predicting complex interactions between input-output parameters. However, these networks require large datasets which often exceed practical considerations in modeling experimental results. To alleviate the dataset size requirement, a method known as physics guided machine learning has been applied to construct several neural networks for predicting propeller tonal noise in the time domain over a broad range of flight conditions. Three space-filling designs, namely, Latin-Hypercube, Sphere-Packing, and Grid-Space, were used to distribute points throughout the input parameter space encompassing nondimensional flight conditions and observer geometry. Each neural network’s performance was validated by conditions outside of the training set and compared to the Propeller Analysis System tool from the NASA Aircraft Noise Prediction Program. Compared to the Grid-Space input design, the Latin-Hypercube and the Sphere-Packing designs provided a better representation of the domain for training. Regarding the network archetype, a fully connected perceptron was found to outperform the partially connected perceptron in their ability to predict tonal noise for small datasets. The black-box nature of these neural networks was also explored to understand how the networks constructed the waveform and understand why some network designs produce better models.

Propeller noise↗
NASA NTRSDate not supplied

Open Science for Life in Space: Data Sharing and Tools for Knowledge Discovery

The next era in human space exploration is rapidly approaching and will require the use of countermeasures to deep space health hazards. The development of countermeasures (or, there-purposing of existing agents) will be highly dependent on our understanding of basic biological responses to space stressors (e.g. ionizing radiation, altered gravitational fields, altered day-night cycles, confinement, isolation, hostile-closed environments, distance-duration from Earth, exposure to celestial regolith, etc.). The fast-growing array of space biological data, which in the past was simply archived after minimal analysis, holds great potential if it can be reorganized and formatted for Open Science. Organizing the data for such analysis is a challenge because of its diverse nature (molecular, cellular, tissue, imaging, whole organism and behavior). We will discuss here several strategies that NASA's Biological and Physical Science Division has put in place to maximize the return on investment for spaceflight bioscience data. Open Science, as a scientific philosophy, is the concept that the more people who have access to the data, the more knowledge will be gained from it. This guiding principle led NASA to develop GeneLab in 2015. GeneLab houses spaceflight and relevant ground-based multi-omics data, and has grown to ~400 transcriptomatic, proteomic, metabolomic and epigenomic datasets from plant, rodent, small animal, and microbial space experiments. GeneLab provides users with various tools for data analysis and a visualization portal that allows users to interact with gene expression data from space-related 'omics experiments. Open Science is also about building scientific communities, and with this spirit in mind, GeneLab has spawned several Analysis Working Groups (AWGs), comprised of more than 200 volunteer scientists. The AWGs initially provided feedback on the processing pipeline and metadata 'omics standards for GeneLab. Over the last few years, they have become a community-driven science enterprise, engaging in large meta-analysis of GeneLab datasets, resulting in 10 publications (beyond the originally submitted research). Overall, the Open Science nature of GeneLab has resulted in a high degree of data-use, resulting in 40 enabled publications by open data. The enormous success and knowledge gained from GeneLab has led to a collection of sister NASA "Open Science Data Repositories (OSDR)" and research support groups. These include the NASA Ames Life Sciences Data Archive (ALSDA), the NASA Biological Institutional Scientific Collection (NBISC), and the Biospecimen Sharing Program (BSP). All are adopting the GeneLab data architecture system to maximize open-access, find-ability, accessibility, interoperability, and reusability (FAIR). ALSDA collects and curates phenotypic-physiological bioimaging-behavioral data from space and space-relevant non-human experiments, oftentimes coming from the same omics-associated experimental datasets found in GeneLab. Since 2021, a community of ~100 researchers have rallied around ALSDA, to provide feedback in a new ALSDA AWG focused on phenotypic-physiological investigation-sample-assay metadata standards (e.g., Micro-Computed Tomography, Light/Flourescence Microscopy, Western Blot, Flow Cytometry, Novel Object Recognition, Elevated Plus Maze, etc. of ~50 assays collected). These standards are part of a new single point-of-entry data submission portal for all non-human Space Biology and Human Research Program principal investigators, to submit, curate, and share their research data. With open-access space biological data now collected and curated together with rich metadata, and with the potential for linkage to "big data" from the international biological and medical communities (NIH, EBI, etc.), the artificial intelligence and machine learning (AI/ML) era has started for Space Biology.

omics↗
NASA NTRS2022

Evaluation of remote sensing-based evapotranspiration products at low-latitude eddy covariance sites

Remote sensing-based evapotranspiration (ET) products have been evaluated primarily using data from northern middle latitudes; therefore, little is known about their performance at low latitudes. To address this bias, an evaluation dataset was compiled using eddy covariance data from 40 sites between latitudes 30° S and 30° N. The flux data were obtained from the emerging network in Mexico (MexFlux) and from openly available databases of FLUXNET, AsiaFlux, and OzFlux. This unique reference dataset was then used to evaluate remote sensing-based ET products in environments that have been underrepresented in earlier studies. The evaluated products were: MODIS ET (MOD16, both the discontinued collection 5 (C5) and the latest collection (C6)), Global Land Evaporation Amsterdam Model (GLEAM) ET, and Atmosphere-Land Exchange Inverse (ALEXI) ET. Products were compared with unadjusted fluxes (ETorig) and with fluxes corrected for the lack of energy balance closure (ETebc). Three common statistical metrics were used: coefficient of determination (R2), root mean square error (RMSE), and percent bias (PBIAS). The effect of a vegetation mismatch between pixel and site on product evaluation results was investigated by examining the relationship between the statistical metrics and product-specific vegetation match indexes. Evaluation results of this study and those published in the literature were used to examine the performance of the products across latitudes. Differences between the MOD16 collection 5 and 6 datasets were generally smaller than differences with the other products. Performance and ranking of the evaluated products depended on whether ETorig or ETebc was used. When using ETorig, GLEAM generally had the highest R2, smallest PBIAS, and best RMSE values across the studied land cover types and climate zones. Neither MOD16 nor ALEXI performed consistently better than the other. When using ETebc, none of the products stood out in terms of both low bias and strong correlations. The use of ETebc instead of ETorig affected the biases more than the correlations. The product evaluation results showed no significant relationship with the degree of match between the vegetation at the pixel and site scale. The latitudinal comparison showed tendencies of lower R2 (all products) but better PBIAS and normalized RMSE values (MOD16 and GLEAM) for forests at low latitudes than for forests at northern middle latitudes. For non-forest vegetation, the products showed no clear latitudinal differences in performance.

Diego Salazar-Martínez↗
NASA NTRSDate not supplied

Lunar Science Investigations and Exploration in Celestial Mapping System

Introduction: As NASA expands the mission portfolio on the lunar surface, there is a need for applications with a broad range of analytical and functional capabilities that can be simultaneously deployed onto multiple mobile and desktop platforms to perform in-situ operations and hence enabling extensive Lunar exploration. Celestial Mapping System (CMS) [1,2] is developed to address the need for tools for science investigations, mission planning, operations and support for planetary sciences. Built on top of NASA WorldWind libraries, CMS can be simultaneously deployed onto multiple platforms, has the flexibility to update to the latest imagery and terrain datasets as they are being acquired (in real time) before and/or during the exploration mission and has the potential to enable traverse path planning suited for rovers, EVA and surface mobility units. It can provide critical functionalities such as equipment planning and optimized placement on Lunar surface, line of sight analysis to inform the coverage area for various equipment, powerful measurement tools based on 3D terrain, 3D COLLADA models to represent rovers, humans and equipment, visualization of derived mapping products (e.g. resource maps), and a data engine for hosting new observations that are not available in other contemporary lunar data tools [1]. Visualization of PSRs: The current presentation focuses on the work performed by the authors, to consume a unique dataset of super-enhanced images of the permanently shadowed regions (PSRs) at the lunar poles which were produced by the Hyper-effective nOise Removal U-net Software (HORUS) tool [3]. This tool was developed in direct support of NASA's VIPER and Artemis programs to enhance the extremely low-light images of the interior of PSRs and provide the first-time ability to see within these regions at and discern surface features (i.e. boulders and craters) down to 3 meters in size. We focused on the region near Nobili crater near Lunar south pole, selected site for VIPER mission and stitched several images to create a high-resolution map within one of the PSR of Nobile crater. Line of Sight Analysis and Traverse Planning in PSRs: We have developed an in-built line of sight analysis (LOS) tool in CMS that analyzes the terrain profile and obstructions and provides the visibility of a given terrain for a remote observer. This tool was utilized to perform viewshed analysis to investigate the area inside the PSR, a remote observer such as a rover could see without actually crossing the region. Figure 1 shows the viewshed analysis on the PSR in Nobile region. The yellow pin shows the observer location outside the PSR. The yellow area shows the visible part of PSR. The obstructed area with no visibility for the observer is shown in red. Figure 1: (left) PSR image on top of a high-resolution mosaic of sunlit images of a crater, in Nobile region (right) Viewshed Analysis of the same PSR with observer location shown by yellow pin. This analysis was extended further to set different heights for various observers and then perform the viewshed analysis. Combining the different visibility profiles can help designing improved traverses within the crater. Future plans: Eventually, HORUS datasets will be integrated into CMS as a layer in selected lunar polar regions. Hazard Maps will then be created based on terrain analysis in those regions. This integration will enable multiple scientific and exploration applications, such as designing traverses within PSRs, analyzing potential landing and science mission targets, investigating the meter-scale geomorphology of PSRs, including craters, boulder, surface roughness, mass wasting features and other indications of the presence of water-ice and other volatiles. Acknowledgments: CMS developers team including Kaitlyn J. Dickinson, Tyler A. Lucarz, Tyler W. Choi from USRA, NASA WorldWind Advisory team including Mark Peterson and Guillermo Miguel Del Castillo, HORUS team member V.T. Bickel, Robinson, M., LRO MOON LROC 2 EDR V1.0, LRO-L-LROC-2-EDR-V1.0, NASA Planetary Data System (PDS), 2009. https://doi.org/10.17189/1520643 References: [1] https://celestial.arc.nasa.gov [2] Agrawal et. al. “Celestial Mapping System for Lunar Surface Mapping and Analytics”, Lunar Surface Innovation Consortium, 2021 [3] Bickel V. et al. (2021) Nat Commun 12, 5607

Lunar Mapping↗
NASA NTRS2022

Design of Materials with Alchemite

Machine learning models that establish the relationships between materials processing and properties can enable inverse design of materials through active learning. Alchemite is a commercial software that can perform inverse materials design on sparse data. Here we evaluate Alchemite’s performance on a dataset of shape memory alloys and a dataset of heat exchangers compared to baseline random forest models. Alchemite had higher accuracy when making predictions on sparse data and was more accurate or nearly as accurate as random forests on complete datasets while also quantifying uncertainty. The software was also used to suggest processing steps and design parameters to optimize properties and performance; however, physical validation of the suggested design parameters was beyond the scope of this work. Several useful design insights were gained about the impact of the design parameters on properties and performance including the importance of dopant choice and amount for shape memory alloys and the importance of height and weight on the thermal resistance of heat exchangers.

Machine learning↗
NASA NTRS2022

GBaTSv2: a revised synthesis of the likely basal thermal state of the Greenland Ice Sheet

The basal thermal state (frozen or thawed) of the Greenland Ice Sheet is under-constrained due to few direct measurements, yet knowledge of this state is becoming increasingly important to interpret modern changes in ice flow. The first synthesis of this state relied on inferences from widespread airborne and satellite observations and numerical models, for which most of the underlying datasets have since been updated. Further, new and independent constraints on the basal thermal state have been developed from analysis of basal and englacial reflections observed by airborne radar sounding. Here we synthesize constraints on the Greenland Ice Sheet's basal thermal state from boreholes, thermomechanical ice-flow models that participated in the Ice Sheet Model Intercomparison Project for CMIP6 (ISMIP6; Coupled Model Intercomparison Project Phase 6), IceBridge BedMachine Greenland v4 bed topography, Making Earth Science Data Records for Use in Research Environments (MEaSUREs) Multi-Year Greenland Ice Sheet Velocity Mosaic v1 and multiple inferences of a thawed bed from airborne radar sounding. Most constraints can only identify where the bed is likely thawed rather than where it is frozen. This revised synthesis of the Greenland likely Basal Thermal State version 2 (GBaTSv2) indicates that 33 % of the ice sheet's bed is likely thawed, 40 % is likely frozen and the remainder (28 %) is too uncertain to specify. The spatial pattern of GBaTSv2 is broadly similar to the previous synthesis, including a scalloped frozen core and thawed outlet-glacier systems. Although the likely basal thermal state of nearly half (46 %) of the ice sheet changed designation, the assigned state changed from likely frozen to likely thawed (or vice versa) for less than 6 % of the ice sheet. This revised synthesis suggests that more of northern Greenland is likely thawed at its bed and conversely that more of southern Greenland is likely frozen, both of which influence interpretation of the ice sheet's present subglacial hydrology and models of its future evolution. The GBaTSv2 dataset, including both code that performed the analysis and the resulting datasets, is freely available at https://doi.org/10.5281/zenodo.6759384 (MacGregor, 2022).

Joseph A. MacGregor↗
NASA NTRS2022

Assessment of Two Stochastic Cloud Subcolumn Generators Using Observed Fields of Vertically Resolved Cloud Extinction

We evaluate two stochastic subcolumn generators used in GCMs to emulate subgrid cloud variability enabling comparisons with satellite observations and simulations of certain physical processes. Our evaluation necessitated the creation of a reference observational dataset that resolves horizontal and vertical cloud variability. The dataset combines two CloudSat cloud products that resolve two-dimensional cloud optical depth variability of liquid, ice, and mixed phase clouds when blended at ~200 m vertical and ~ 2 km horizontal scales. Upon segmenting the dataset to individual “scenes”, mean profiles of the cloud fields are passed as input to generators that produce scene-level cloud subgrid variability. The assessment of generator performance at the scale of individual scenes and in a mean sense is largely based on inferred joint histograms that partition cloud fraction within predetermined combinations of cloud top pressure –cloud optical thickness ranges. Our main finding is that both generators tend to underestimate optically thin clouds, while one of them also tends to overestimate some cloud types of moderate and high optical thickness. Associated radiative flux errors are also calculated by applying a simple transformation to the cloud fraction histogram errors, and are found to approach values almost as high as 3 Wm-2 for the cloud radiative effect in the shortwave part of the spectrum.

cloud variability↗
NASA NTRSDate not supplied

Root Cause Analysis of the Data Refinement Process – Medical Conditions Capability Resource Tables

The medical system for spaceflight thus far has been designed to support missions in low earth orbit (LEO). Crew capabilities are limited and heavily dependent on the team of medical support staff at Mission Control Center (MCC) to guide diagnosis and management. However, missions to the Moon and Mars will suffer from several constraints that will make this ground support focused approach to care ineffective. In order to update and modify medical system design, NASA has relied on Probabilistic Risk Assessment (PRA) modeling to mitigate medical risk through trade space analysis. Specifically, capability resource tables (CRT’s) were developed to create a dataset of resources required to manage a list of accepted medical conditions significant in exploration spaceflight. With 120 conditions, this dataset contained hundreds of capabilities and thousands of resources with tens of thousands of cells of data. Initially these tables were built in excel for high throughput during development, but ultimately had to be transferred, managed, and modified into the Evidence Library database for modeling purposes. The process of collating and reviewing the Evidence Library revealed numerous errors in the dataset that had to be corrected through iterative changes. Several error types emerged during this process and can be broken into specific classifications defined as “input”, “transcription”, “structural”, “branching”, and “information”. In reviewing these error types through the root cause analysis (RCA) approach, we were able to identify the contributors to these errors which included single data review points, changing product end goals, limited software selection, time constraints and several others. By reviewing and evaluating the underlying causes we can provide possible system improvements that can be implemented for current and future data management in PRA model inputs.

A. Anderson↗
NASA NTRSDate not supplied

Transcriptomics-based Machine Learning Analysis Predicts Space-Exposed Murine Livers

Limited sample sizes, high data dimensionality, and sensitivity to technical and biological variability of next generation sequencing (NGS), typically limits machine learning (ML) approaches in spaceflight studies that include radiation effects. However, pooling smaller studies while addressing intra- and inter-study variabilities allows for ML predictive modeling. Here, integration methods were applied to whole transcriptome shotgun sequencing (RNA-seq) data from six mouse liver GeneLab datasets (GLDS) (n ranging from 6 to 39 samples) from with a total of 81 spaceflight and ground-control samples to determine top features (i.e. genes) relevant to spaceflight including the effect of radiation exposure. RNASeq counts were normalized for each study, then merged and scaled across all datasets. Data dimensionality was reduced using a minimum redundancy maximum relevance (MRMR) methodology. Redundancy and relevance were computed using the Pearson correlation and F-statistic, respectively. The top 100 MRMR features were used to predict spaceflight vs. ground-control samples using Random Forest (RF), Support Vector Machine (SVM), and Linear Discriminant Analysis (LDA) classifiers with 5-fold cross validation (CV). Principal component analysis (PCA) on the complete feature set versus the MRMR features shows separation between spaceflight samples and ground controls (Figure 1A). The ML-based gene sets were compared against differential gene expression results obtained with DESeq2 from individual GLDS. Using all features or randomly sampled subsets at matching set sizes with MRMR, a maximum classifier accuracy of 69% was shown on the test set over 5 folds. For all classifiers, CV training using at least the top 30 MRMR genes show minimum 89% accuracy and 0.95 AUC value on the test set over 5 folds (Figure 1B). Baseline set analysis on differentially expressed genes (DEGs) identified using padj ≤ 0.05 show 295 DEGs that overlap at least two studies and 13 DEGs that overlap three studies (Figure 1C). Set analysis between the top 100 MRMR features and the DEGs showed 47 genes that overlap at least one study and 24 genes that overlap two studies. Over-representation analysis showed overlapping biological processes related to fatty acid and lipid metabolism which may indicate these processes in the response to spaceflight stressors. MRMR feature selection for the selected ML methods improve performance relative to a classifier built on all features or randomly sampled subsets. Permutation feature importance within the decorrelated MRMR features showed concordance in feature ranking between ML methods. A challenge of applying ML methods across heterogeneous NGS data is accounting for signal:noise. Here, signal validation across studies was shown by intersecting sets between top MRMR genes and DEGs from DESeq2 analysis. Non-intersecting sets introduce opportunity to explore genes relevant to differentiating space flight exposed groups and implementing ML methods across existing NGS datasets may overcome sample size limitations.

Machine Learning↗
NASA NTRSDate not supplied

Biological Data for Deep Space Mission Support

Increased biomedical risks and challenges associated with deep space missions (cis-Lunar, Mars transit, Mars surface) require new knowledge discovery and development of novel ecosystem and biomedical support capabilities. This paradigm shift supporting distant and long-duration missions requires biological data to be findable, accessible, interoperable, reusable (FAIR), and maximally open-access (i.e., there is a data governance continuum from closed to mediated to embargoed to open). The NASA “Open Science Data Repositories” (OSDR) aims to meet scientific, technical, and operational spaceflight needs, and offers the ability to upload, download, search, share, analyze, and visualize data across physiological, behavioral, ‘omics, and environmental monitoring telemetry datasets. OSDR includes NASA GeneLab, NASA Ames Life Sciences Data Archive (ALSDA), and NASA Biological Institutional Scientific Collection (NBISC). In the past year, ALSDA has undergone a transformation in its data collection, curation, and architecture methods. Standardizing non-genomic (phenotypic) datasets was, and will continue to be, a challenge because of their diverse nature (e.g., molecular, cellular, tissue, whole organism behavior; micro-computed tomography, intraocular pressure, fluorescence microscopy, western blot, ultrasonography; tabular, images, video). This year ALSDA, alongside GeneLab, introduced the Biological Data Management Environment (BDME) with the purpose to accept submission of data from space relevant experiments including spaceflight, radiation, simulated gravity, gravitropism, isolation and confinement, hostile closed environments and/or distance from Earth. In addition to bringing together omics, phenotypic, physiological, bioimaging, and behavioral data into one repository. By integrating with GeneLab a multi-project submission portal aims to reduce the burden on PIs submitting data and enabling the discovery of both omics and phenotypic data. The purpose of ALSDA is to collect, curate, and make all non-human space-relevant biological data maximally findable, accessible, interoperable, and reusable (FAIR). These scope of ALSDA data collected and submitted by PIs include study design metadata, subject metadata, assay metadata (parameters), raw and processed assay data, assay imagery/video, and subject-experienced mission data telemetry (radiation, temperature, humidity, acoustics, vibrations, etc.). In 2021, a community of researchers rallied to form the ALSDA Analysis Working Group (AWG) and provided scientific consensus on dataset sample and assay metadata. The community and excitement around the ALSDA/OSDR system has already led to several data reuse studies, demonstrating value using machine learning (ML), knowledge graphs, and meta-analysis approaches.

space biology↗
NASA NTRSDate not supplied

Transcriptomics-based Machine Learning (ML) Analysis Predicts Space-Exposed Murine Livers

Limited sample sizes, high data dimensionality, and sensitivity to technical and biological variability of next generation sequencing (NGS), typically limits machine learning (ML) approaches in spaceflight studies that include radiation effects. However, pooling smaller studies while addressing intra- and inter-study variabilities allows for ML predictive modeling. Here, integration methods were applied to whole transcriptome shotgun sequencing (RNA-seq) data from six mouse liver GeneLab datasets (GLDS) (n ranging from 6 to 39 samples) from with a total of 81 spaceflight and ground-control samples to determine top features (i.e. genes) relevant to spaceflight including the effect of radiation exposure. RNASeq counts were normalized for each study, then merged and scaled across all datasets. Data dimensionality was reduced using a minimum redundancy maximum relevance (MRMR) methodology. Redundancy and relevance were computed using the Pearson correlation and F-statistic, respectively. The top 100 MRMR features were used to predict spaceflight vs. ground-control samples using Random Forest (RF), Support Vector Machine (SVM), and Linear Discriminant Analysis (LDA) classifiers with 5-fold cross validation (CV). Principal component analysis (PCA) on the complete feature set versus the MRMR features shows separation between spaceflight samples and ground controls (Figure 1A). The ML-based gene sets were compared against differential gene expression results obtained with DESeq2 from individual GLDS. Using all features or randomly sampled subsets at matching set sizes with MRMR, a maximum classifier accuracy of 69% on the test set over 5 folds. For all classifiers, CV training using at least the top 30 MRMR genes show minimum 89% accuracy and 0.95 AUC value on the test set over 5 folds (Figure 1B). Baseline set analysis on differentially expressed genes (DEGs) identified using padj ≤ 0.05 show 295 DEGs that overlap at least two studies and 13 DEGs that overlap three studies (Figure 1C). Set analysis between the top 100 MRMR features and the DEGs showed 47 genes that overlap at least one study and 24 genes that overlap two studies. Over-representation analysis showed overlapping biological processes related to fatty acid and lipid metabolism which may indicate these processes in the response to spaceflight stressors. MRMR feature selection for the selected ML methods improve performance relative to a classifier built on all features or randomly sampled subsets. Permutation feature importance within the decorrelated MRMR features showed concordance in feature ranking between ML methods. A challenge of applying ML methods across heterogeneous NGS data is accounting for signal:noise. Here, signal validation across studies was shown by intersecting sets between top MRMR genes and DEGs from DESeq2 analysis. Non-intersecting sets introduce opportunity to explore genes relevant to differentiating space flight exposed groups and implementing ML methods across existing NGS datasets may overcome sample size limitations.

Machine Learning↗
NASA NTRSDate not supplied

Dissemination of Global Flood Severity and Surface Water Mapping using Remote Sensing Data to Global Stakeholders

Flooding is a natural event that occurs frequently with high severity worldwide, responsible for significant societal and economic impacts. Disaster managers face significant challenges managing essential information for preparedness, response, and recovery efforts. The development of an open access, global flood alerting system for effective identification of flood impacted areas, classification of potential impacts, and the formulation of effective emergency response measures requires the incorporation of a wide variety of flood models and remote sensing data sources from multiple platforms. NASA is currently funding projects focused on flood forecasting, post-event flood mapping, flood depth estimation and pre-event flood severity estimation using Earth observation (EO) datasets and derived flood products. A new initiative in the Disasters Program is underway to disseminate flood products from different hydrologic models and sensors to global stakeholders via Pacific Disaster Center’s DisasterAWARE®, NASA’s Disasters Mapping Portal and potentially other mechanisms. This initiative focuses on improving response capacity and use of EO products in near real-time by a broader community for resource planning in case of extreme events. As part of this initiative, we have deployed Model of Models (MoM) – an open-source ensemble approach, that integrates outputs from hydrologic models and EO data from optical imagery to assess flood severity daily at sub-watershed level globally. The MoM output is integrated with the incident event system of DisasterAWARE to generate flood severity risk and flood impact boundaries, which are disseminated via the DisasterAWARE platform to different stakeholders globally for decision-making and response efforts. The next step will focus on using MoM outputs to estimate flood depth and extent mapping using high-resolution Synthetic Aperture Radar imagery, impact assessment using optical imagery and population datasets, and damage estimation using critical infrastructure datasets, which would be disseminated via DisasterAWARE to decision-makers, emergency managers and first responders around the world.

flood↗
NASA NTRSDate not supplied

Large Scale Transcriptional Analysis of Legacy Spaceflight Tissues From the Nasa Biological Institutional Science Collection

The NASA Biological Institutional Science Collection (NBISC) has amassed a collection of valuable space biology samples spanning from early Space Shuttle missions to recent missions on the International Space Station (ISS). However, the full potential of this archive has not been realized, with many samples having been stored for decades without being re-accessed. Given the pace of analytical advancement since NBISC began accumulating samples, we initiated a pilot study to reveal additional patterns that may have been missed during the original investigations and provide technical robustness and scientific value for a cost-effective sequencing approach. We selected 84 mouse and rat samples spanning four separate Space Shuttle, ISS and ground-analogue studies with a focus on muscle, spleen and thymus tissues to allow identification of important changes related to musculoskeletal unloading and immune function. High quality RNA from these tissues was extracted and used to generate transcriptional profiling data using a cost-effective Tag-seq approach and immediately released it on GeneLab. The released datasets included gastrocnemius tissues from rats during the 1991 Space Shuttle mission (GLDS-422) and a ground analogue study in 2019 (GLDS-418), and mice from the 2014 ISS mission (GLDS-419). Also released were two thymus datasets, one from rats flown on the 1993 Space Shuttle (GLDS-423) and another from mice flown on the 2017 ISS (GLDS-421) missions, along with one mouse spleen dataset from a 2017 ISS mission (GLDS-420). These data will serve as a pilot of a much larger and comprehensive study which would generate similar data from thousands of NBISC samples, enabling the discovery and validation of molecular networks influenced by space conditions.

Lovorka Degoricija↗
NASA NTRS2022

Colorado Eastern Plains Agriculture: Rangeland Monitoring to Inform Grazing Management in Eastern Colorado

Adaptive management on cattle ranches requires rangeland managers to decide the location and duration of the cattle grazing activity across different pastures. Biodiversity, forage availability, and cattle health are all affected by rangeland management. Virtual fencing is a tool that rangeland managers can use to potentially increase biodiversity and improve ranching operations. NASA DEVELOP and Colorado State University (CSU) collaborated with the Nature Conservancy (TNC), and Red Top Ranch to demonstrate the efficacy of virtual fencing. We sought to identify annual and monthly biomass patterns on the ranch through the creation of monthly max biomass productivity maps. We utilized a dataset from the Agricultural Research Service (ARS) to calculate biomass on the ranch. To validate our remotely-sensed results, we compared model-predicted biomass values to field-collected biomass clipping data and an additional biomass dataset from the Rangeland Analysis Platform (RAP). We used satellite imagery from Landsat 5 Thematic Mapper (TM), Landsat 7 Enhanced Thematic Mapper Plus (ETM+), Landsat 8 Operational Land Imager (OLI), Landsat 9 –OLI-2, and Sentinel-2 MultiSpectral Instrument (MSI) for 2021 and 2022. We found that there was heterogeneity in biomass across the ranch, with higher biomass on the western side. The highest peak of biomass was in the summer months, with a smaller peak in mid-September. The ARS biomass dataset had a significant relationship with RAP for 2021. ARS biomass did not have a significant relationship with the biomass field data collected in 2022. The results of our study are aimed to support rotation management, ranch production, biodiversity, and conservation management.

cattle↗
NASA NTRS2023

Using Satellite-Based Terrestrial Water Storage Data: A Review

Land water storage plays a key role for the Earth’s climate, natural ecosystems, and human activities. Since the launch of the first Gravity Recovery and Climate Experiment (GRACE) mission in 2002, spaceborne observations of changes in terrestrial water storage (TWS) have provided a unique, global perspective on natural and human-induced changes in freshwater resources. Even though they have become much used within the broader Earth system science community, space-based TWS datasets still incorporate important and case-specific limitations which may not always be clear to users not familiar with the underlying processing algorithms. Here, we provide an accessible and illustrated overview of the measurement concept, of the main available data products, and of some frequently encountered technical terms and concepts. We summarize concrete recommendations on how to use TWS data in combination with other hydrological or climatological datasets, and guidance on how to avoid possible pitfalls. Finally, we provide an overview of some of the main applications of GRACE TWS data in the fields of hydrology and climate science. This review is written with the intention of supporting future research and facilitating the use of satellite-based terrestrial water storage datasets in interdisciplinary contexts.

Terrestrial water storage↗
NASA NTRSDate not supplied

Transcriptomics-based Machine Learning Analysis Predicts Space-Exposed Murine Livers

Limited sample sizes, high data dimensionality, and sensitivity to technical and biological variability of next generation sequencing (NGS), typically limits machine learning (ML) approaches in spaceflight studies that include radiation effects. However, pooling smaller studies while addressing intra- and inter-study variabilities allows for ML predictive modeling. Here, integration methods were applied to whole transcriptome shotgun sequencing (RNA-seq) data from six mouse liver GeneLab datasets (GLDS) (n ranging from 6 to 39 samples) from with a total of 81 spaceflight and ground-control samples to determine top features (i.e. genes) relevant to spaceflight including the effect of radiation exposure. RNASeq counts were normalized for each study, then merged and scaled across all datasets. Data dimensionality was reduced using a minimum redundancy maximum relevance (MRMR) methodology. Redundancy and relevance were computed using the Pearson correlation and F-statistic, respectively. The top 100 MRMR features were used to predict spaceflight vs. ground-control samples using Random Forest (RF), Support Vector Machine (SVM), and Linear Discriminant Analysis (LDA) classifiers with 5-fold cross validation (CV). Principal component analysis (PCA) on the complete feature set versus the MRMR features shows separation between spaceflight samples and ground controls (Figure 1A). The ML-based gene sets were compared against differential gene expression results obtained with DESeq2 from individual GLDS. Using all features or randomly sampled subsets at matching set sizes with MRMR, a maximum classifier accuracy of 69% was shown on the test set over 5 folds. For all classifiers, CV training using at least the top 30 MRMR genes show minimum 89% accuracy and 0.95 AUC value on the test set over 5 folds (Figure 1B). Baseline set analysis on differentially expressed genes (DEGs) identified using padj ≤ 0.05 show 295 DEGs that overlap at least two studies and 13 DEGs that overlap three studies (Figure 1C). Set analysis between the top 100 MRMR features and the DEGs showed 47 genes that overlap at least one study and 24 genes that overlap two studies. Over-representation analysis showed overlapping biological processes related to fatty acid and lipid metabolism which may indicate these processes in the response to spaceflight stressors. MRMR feature selection for the selected ML methods improve performance relative to a classifier built on all features or randomly sampled subsets. Permutation feature importance within the decorrelated MRMR features showed concordance in feature ranking between ML methods. A challenge of applying ML methods across heterogeneous NGS data is accounting for signal:noise. Here, signal validation across studies was shown by intersecting sets between top MRMR genes and DEGs from DESeq2 analysis. Non-intersecting sets introduce opportunity to explore genes relevant to differentiating space flight exposed groups and implementing ML methods across existing NGS datasets may overcome sample size limitations.

Machine Learning↗
NASA NTRSDate not supplied

Biological Data for Deep Space Mission Support

Increased biomedical risks and challenges associated with deep space missions (cis-Lunar, Mars transit, Mars surface) require new knowledge discovery and development of novel ecosystem and biomedical support capabilities. This paradigm shift supporting distant and long-duration missions requires biological data to be findable, accessible, interoperable, reusable (FAIR), and maximally open-access (i.e., there is a data governance continuum from closed to mediated to embargoed to open). The NASA “Open Science Data Repositories” (OSDR) aims to meet scientific, technical, and operational spaceflight needs, and offers the ability to upload, download, search, share, analyze, and visualize data across physiological, behavioral, ‘omics, and environmental monitoring telemetry datasets. OSDR includes NASA GeneLab, NASA Ames Life Sciences Data Archive (ALSDA), and NASA Biological Institutional Scientific Collection (NBISC). In the past year, ALSDA has undergone a transformation in its data collection, curation, and architecture methods. Standardizing non-genomic (phenotypic) datasets was, and will continue to be, a challenge because of their diverse nature (e.g., molecular, cellular, tissue, whole organism, behavior; micro-computed tomography, intraocular pressure, fluorescence microscopy, western blot, ultrasonography; tabular, images, video). This year ALSDA, alongside GeneLab, introduced the Biological Data Management Environment (BDME) with the purpose to accept submission of data from space relevant experiments including spaceflight, radiation, simulated gravity, gravitropism, isolation and confinement, hostile closed environments and/or distance from Earth. In addition to bringing together omics, phenotypic, physiological, bioimaging, and behavioral data into one repository. By integrating with GeneLab a multi-project submission portal aims to reduce the burden on PIs submitting data and enabling the discovery of both omics and phenotypic data. The purpose of ALSDA is to collect, curate, and make all non-human space-relevant biological data maximally findable, accessible, interoperable, and reusable (FAIR). These scope of ALSDA data collected and submitted by PIs include study design metadata, subject metadata, assay metadata (parameters), raw and processed assay data, assay imagery/video, and subject-experienced mission data telemetry (radiation, temperature, humidity, acoustics, vibrations, etc.). In 2021, a community of researchers rallied to form the ALSDA Analysis Working Group (AWG) and provided scientific consensus on dataset sample and assay metadata. The community and excitement around the ALSDA/OSDR system has already led to several data reuse studies, demonstrating value using machine learning (ML), knowledge graphs, and meta-analysis approaches.

space biology↗