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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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All sourcesNASA NTRSDOE OSTI
NASA NTRS1995

Image analysis used to count and measure etched tracks from ionizing radiation

We have developed techniques to use digitized scanning electron micrographs and computer image analysis programs to measure track densities in lunar soil grains and plastic dosimeters. Tracks in lunar samples are formed by highly ionizing solar energetic particles and cosmic rays during near surface exposure on the Moon. The track densities are related to the exposure conditions (depth and time). Distributions of the number of grains as a function of their track densities can reveal the modality of soil maturation. We worked on two samples identified for a consortium study of lunar weathering effects, 61221 and 67701. They were prepared by the lunar curator's staff as polished grain mounts that were etched in boiling 1 N NaOH for 6 h to reveal tracks. We determined that backscattered electron images taken at 10 percent contrast and approximately 50 percent brightness produced suitable high contrast images for analysis. We used the NIH Image program to cut out areas that were unsuitable for measurement such as edges, cracks, etc. We ascertained a gray-scale threshold of 25 to separate tracks from background. We used the computer to count everything that was two pixels or greater in size and to measure the area to obtain track densities. We found an excellent correlation with manual measurements for track densities below 1 x 10(exp 8) cm(exp -2). For track densities between 1 x 10(exp 8) cm(exp -2) to 1 x 10(exp 9) cm(exp -2) we found that a regression formula using the percentage area covered by tracks gave good agreement with manual measurements. We determined the track density distributions for 61221 and 67701. Sample 61221 is an immature sample, but not pristine. Sample 67701 is a submature sample that is very close to being fully mature. Because only 10 percent of the grains have track densities less than 10(exp 9) cm(exp -2), it is difficulty to determine whether the sample matured in situ or is a mixture of a mature and a submature soil. Although our analysis of plastic dosimeters is at an early stage of development, results are encouraging. The dosimeter was etched in 6.25 N NaOH at 70 deg C for 16 h. We took 200x secondary electron images of the sample and used the NIH Image software to count and measure major and minor diameters of the etched tracks. We calculated the relative track etch rate from a formula that relates it to the major and minor diameters. We made a histogram of the number of tracks versus their relative etch rate. The relative track etching rate is proportional to the linear energy transfer of the particle. With appropriate calibration experiments, the histogram could be used to calculate the radiation dose.

Blanford, George E.↗
DOE OSTI2024

Real-time breath analysis towards a healthy human breath profile

Abstract The direct analysis of molecules contained within human breath has had significant implications for clinical and diagnostic applications in recent decades. However, attempts to compare one study to another or to reproduce previous work are hampered by: variability between sampling methodologies, human phenotypic variability, complex interactions between compounds within breath, and confounding signals from comorbidities. Towards this end, we have endeavored to create an averaged healthy human ‘profile’ against which follow-on studies might be compared. Through the use of direct secondary electrospray ionization combined with a high-resolution mass spectrometry and in-house bioinformatics pipeline, we seek to curate an average healthy human profile for breath and use this model to distinguish differences inter- and intra-day for human volunteers. Breath samples were significantly different in PERMANOVA analysis and ANOSIM analysis based on Time of Day, Participant ID, Date of Sample, Sex of Participant, and Age of Participant ( p < 0.001). Optimal binning analysis identify strong associations between specific features and variables. These include 227 breath features identified as unique identifiers for 28 of the 31 participants. Four signals were identified to be strongly associated with female participants and one with male participants. A total of 37 signals were identified to be strongly associated with the time-of-day samples were taken. Threshold indicator taxa analysis indicated a shift in significant breath features across the age gradient of participants with peak disruption of breath metabolites occurring at around age 32. Forty-eight features were identified after filtering from which a healthy human breath profile for all participants was created.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2014

Mobilization of Viable Tumor Cells Into the Circulation During Radiation Therapy

Purpose: To determine whether radiation therapy (RT) could mobilize viable tumor cells into the circulation of non-small cell lung cancer (NSCLC) patients. Methods and Materials: We enumerated circulating tumor cells (CTCs) by fluorescence microscopy of blood samples immunostained with conventional CTC markers. We measured their DNA damage levels using γ-H2AX, a biomarker for radiation-induced DNA double-strand breaks, either by fluorescence-activated cell sorting or by immunofluorescence microscopy. Results: Twenty-seven RT-treated NSCLC patients had blood samples analyzed by 1 or more methods. We identified increased CTC numbers after commencement of RT in 7 of 9 patients treated with palliative RT, and in 4 of 8 patients treated with curative-intent RT. Circulating tumor cells were also identified, singly and in clumps in large numbers, during RT by cytopathologic examination (in all 5 cases studied). Elevated γ-H2AX signal in post-RT blood samples signified the presence of CTCs derived from irradiated tumors. Blood taken after the commencement of RT contained tumor cells that proliferated extensively in vitro (in all 6 cases studied). Circulating tumor cells formed γ-H2AX foci in response to ex vivo irradiation, providing further evidence of their viability. Conclusions: Our findings provide a rationale for the development of strategies to reduce the concentration of viable CTCs by modulating RT fractionation or by coadministering systemic therapies.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
NASA NTRS2017

OSIRIS-REx Asterod Sample Return Mission

OSIRIS-REx is NASA's third New Frontiers Program mission, following New Horizons that completed a flyby of Pluto in 2015 and the Juno mission to Jupiter that has just begun science operations. The OSIRIS-REx mission's primary objective is to collect pristine surface samples of a carbonaceous asteroid and return to Earth for analysis. Carbonaceous asteroids and comets are 'primitive' bodies that preserved remnants of the Solar System starting materials and through their study scientists can learn about the origin and the earliest evolution of the Solar System. The OSIRIS-REx spacecraft was successfully launched on September 8, 2016, beginning its seven year journey to asteroid 101955 Bennu. The robotic arm will collect 60-2000 grams of material from the surface of Bennu and will return to Earth in 2023 for worldwide distribution by the Astromaterials Curation Facility at NASA Johnson Space Center. The name OSIRIS-REx embodies the mission objectives (1) Origins: Return and analyze a sample of a carbonaceous asteroid, (2) Spectral Interpretation: Provide ground-truth for remote observation of asteroids, (3) Resource Identification: Determine the mineral and chemical makeup of a near-Earth asteroid (4) Security: Measure the non-gravitational that changes asteroidal orbits and (5) Regolith Explorer: Determine the properties of the material covering an asteroid surface. Asteroid Bennu may preserve remnants of stardust, interstellar materials and the first solids to form in the Solar System and the molecular precursors to the origin of life and the Earth's oceans. Bennu is a potentially hazardous asteroid, with an approximately 1 in 2700 chance of impacting the Earth late in the 22nd century. OSIRIS-REx collects from Bennu will help formulate the types of operations and identify mission activities that astronauts will perform during their expeditions. Such information is crucial in preparing for humanity's next steps beyond low Earthy orbit and on to deep space destinations.

Nakamura-Messinger, Keiki↗
NASA NTRS2017

The NASA Ames Life Sciences Data Archive: Biobanking for the Final Frontier

The NASA Ames Institutional Scientific Collection involves the Ames Life Sciences Data Archive (ALSDA) and a biospecimen repository, which are responsible for archiving information and non-human biospecimens collected from spaceflight and matching ground control experiments. The ALSDA also manages a biospecimen sharing program, performs curation and long-term storage operations, and facilitates distribution of biospecimens for research purposes via a public website (https:lsda.jsc.nasa.gov). As part of our best practices, a tissue viability testing plan has been developed for the repository, which will assess the quality of samples subjected to long-term storage. We expect that the test results will confirm usability of the samples, enable broader science community interest, and verify operational efficiency of the archives. This work will also support NASA open science initiatives and guides development of NASA directives and policy for curation of biological collections.

Biobank↗
DOE OSTI2026

Knowledge-guided learning with curated prior genetic biomarkers for robust model interpretation

Abstract Motivation Knowledge-guided learning offers effective and robust model training strategies in data-scarce settings by incorporating established domain knowledge, thereby enhancing generalization, robustness, and interpretability. By contrast, conventional deep learning approaches rely purely on data-driven learning, which can limit robust model interpretability, particularly in high-dimensional settings with limited size samples. In computational biology, knowledge-guided learning has primarily leveraged network- and structural-based knowledge, leading to biologically interpretable representations and enhanced predictive performance compared to conventional approaches. However, curated biomarkers, one of the most accessible forms of biological knowledge, remain largely unexplored within knowledge-guided paradigms. Results In this study, we propose a model-agnostic training paradigm, Biomarker-driven Explainable Prior-guided Learning (BioExPL), that can be applied to any neural networks that incorporates curated prior knowledge. BioExPL enforces neural networks to reflect curated biomarker priors in their latent representations through a novel knowledge-alignment loss. BioExPL consistently demonstrated significantly improved predictive performance and enhanced model interpretability with minimized computational overhead in simulation studies and intensive experiments on multiple cancer datasets. BioExPL not only integrates prior curated knowledge into the model but also accurately identifies unknown associated signals additionally. BioExPL is model-agnostic and domain-independent, enabling its integration into diverse neural network architectures. Availability and implementation The open-source is publicly available at: https://github.com/datax-lab/BioExPL.

Baek, Beomsu [Department of Computer Science, Univ↗
NASA NTRSDate not supplied

Lessons Learned From Designing and Building Low Organic Outgassing Cleanrooms for NASA OSIRIS-REx and Hayabusa2 Curation Facility

NASA Johnson Space Center Astromaterials Acquisition and Curation Office completed construction and commissioning of the OSIRIS-REx and Hayabusa2 cleanroom laboratory suites along with new precision cleaning and advanced curation laboratories consisting of ISO Class 5, 6, and 7 cleanrooms. The new curation facilities are designed for initial receiving, basic characterization, curation processing, and preliminary examination of carbonaceous asteroidal material. The facilities are also designed to enable long-term pristine sample storage to preserve the scientific integrity of each sample to enable future research by the international science community. The scientific study of organics is critical for both missions. The OSIRIS-REx mission instituted a stringent contamination control plan for low organics. Given these mission requirements and long-term storage preservation requirements, cleanroom construction materials were carefully selected to not hinder the scientific search for amino acids and the study of organics in the samples. Cleanroom candidate construction materials were researched for the HVAC system, floors, walls, ceiling, and plenum areas. The team chose several candidate materials that were further tested for their specific outgassing characteristics using ASTM E-595 per ASTM E-2312. The information gained provided the foundation for the final design selection of the cleanroom materials. While material selection is important before and during the facility design phase, the construction phase is where these choices are implemented by the prime construction contractor through final product and material submittals. These submittals are the last check point and changes are often submitted due to engineering/construction conflicts, especially when renovating an existing building. Any new material or equipment/product change must be identified and scrutinized for low particulate shedding and outgassing properties. In some cases, quick testing of new material is required, and compromises must be made in real-time. Careful selection and implementation of cleanroom materials significantly reduced organic and inorganic contamination beyond normal cleanroom baselines.

astromaterials curation↗
NASA NTRSDate not supplied

Lessons Learned From Designing and Building Low Organic Outgassing Cleanrooms for NASA OSIRIS-REx and Hayabusa2 Curation Facility

NASA Johnson Space Center Astromaterials Acquisition and Curation Office completed construction and commissioning of the OSIRIS-REx and Hayabusa2 cleanroom laboratory suites along with new precision cleaning and advanced curation laboratories consisting of ISO Class 5, 6, and 7 cleanrooms. The new curation facilities are designed for initial receiving, basic characterization, curation processing, and preliminary examination of carbonaceous asteroidal material. The facilities are also designed to enable long-term pristine sample storage to preserve the scientific integrity of each sample to enable future research by the international science community. The scientific study of organics is critical for both missions. The OSIRIS-REx mission instituted a stringent contamination control plan for low organics. Given these mission requirements and long-term storage preservation requirements, cleanroom construction materials were carefully selected to not hinder the scientific search for amino acids and the study of organics in the samples. Cleanroom candidate construction materials were researched for the HVAC system, floors, walls, ceiling, and plenum areas. The team chose several candidate materials that were further tested for their specific outgassing characteristics using ASTM E-595 per ASTM E-2312. The information gained provided the foundation for the final design selection of the cleanroom materials. While material selection is important before and during the facility design phase, the construction phase is where these choices are implemented by the prime construction contractor through final product and material submittals. These submittals are the last check point and changes are often submitted due to engineering/construction conflicts, especially when renovating an existing building. Any new material or equipment/product change must be identified and scrutinized for low particulate shedding and outgassing properties. In some cases, quick testing of new material is required, and compromises must be made in real-time. Careful selection and implementation of cleanroom materials significantly reduced organic and inorganic contamination beyond normal cleanroom baselines.

astromaterials curation↗
NASA NTRS2019

NASA GeneLab Platform Utilized for Space Radiation Dosimetry Biological Response Compared to Radiation Ground Studies

Ionizing radiation from Galactic Cosmic Rays (GCR) is one of the major risk factors factor that will impact health of astronauts on extended missions outside the protective effects of the Earth's magnetic field. Currently there are gaps in our knowledge of the health risks associated with chronic low dose, low dose rate ionizing radiation, specifically ions associated with high (H) atomic number (Z) and energy (E). The NASA GeneLab project (genelab.nasa.gov) aims to provide a detailed library of Omics datasets associated with biological samples exposed to HZE. The GeneLab Data System (GLDS) includes datasets from both spaceflight and ground-based studies, a majority of which involved exposure to ionizing radiation. Recently GeneLab has also assessed radiation dosimetry data with omics datasets associated with samples flown to the International Space Station (ISS). The combination of the detailed information on radiation exposure for ground-based studies and curated dosimetry information for spaceflight experiments allows GeneLab to be the first comprehensive Omics database for space related research from which an investigator can generate hypotheses to direct future experiments utilizing both ground and space biological radiation data. We demonstrate the usefulness of these datasets by analyzing multiple GeneLab datasets associated with both radiation ground-based studies and spaceflight studies. The radiation ground based studies we analyzed includes both in vivo and in vitro work with a range ions from protons to iron particles with doses from 0.1Gy to 2Gy. These datasets were compared to both in vivo and in vitro datasets from samples flown to the ISS and on shorter shuttle missions with total doses of 0.1 mGy to 30 mGys. From this analysis we were able to associate distinct biological signatures associating specific ions to specific biological response to radiation exposure in space. For example, we discovered radiation biological response related to cardiovascular effects from proton ground studies are the dominating response for samples related to cardiovascular effects on the ISS. With this work we will provide a summary of how different ions will impact different biological response in space and how this can be used in future studies to assess optimal ground experiments to simulate space radiation.

Beheshti, Afshin↗
DOE OSTI2018

FY 2018 Annual Status Report for the Nuclear Fuels and Materials Library

The Nuclear Fuels and Materials Library (NFML), which is owned by U.S. Department of Energy, Office of Nuclear Energy (DOE-NE) and curated by the Nuclear Science User Facilities (NSUF), is a collection of specialized information and nuclear fuel and material samples from past and ongoing irradiation test campaigns. The NFML also includes real-world components retrieved from decommissioned power reactors and donations from other sources. The NFML can be accessed through a web portal at the NSUF web page NSUF.INL.gov or directly at https://nsuf-infrastructure.inl.gov/. The NFML was conceived shortly after the NSUF was established in 2007. The concept was to offer Advanced Test Reactor (ATR) irradiated materials and NSUF project samples that were stored in Idaho National Laboratory (INL) hot cells to researchers for use in NSUF-awarded research projects. The NFML catalogue began as a series of electronic spreadsheets gathered from principal investigators (PI) and INL programs. In the summer of 2016, the spreadsheets were migrated into an online database within the NSUF website. The NFML inventory has continued to grow with the addition of NSUF-funded project specimens, Experimental Breeder Reactor No. 2 (EBR-II) legacy samples, and donated material from Oak Ridge National Laboratory (ORNL). The online library technology further evolved with upgrades for users and administrators of the database. NFML outreach in FY 2018 included NSUF representatives at conferences and workshops domestically and internationally. This document provides a status report on the NFML for FY 2018.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2021

Co-expression networks in Chlamydomonas reveal significant rhythmicity in batch cultures and empower gene function discovery

The unicellular green alga Chlamydomonas reinhardtii is a choice reference system for the study of photosynthesis and chloroplast metabolism, cilium assembly and function, lipid and starch metabolism, and metal homeostasis. Despite decades of research, the functions of thousands of genes remain largely unknown, and new approaches are needed to categorically assign genes to cellular pathways. Growing collections of transcriptome and proteome data now allow a systematic approach based on integrative co-expression analysis. We used a dataset comprising 518 deep transcriptome samples derived from 58 independent experiments to identify potential co-expression relationships between genes. We visualized co-expression potential with the R package corrplot, to easily assess co-expression and anti-correlation between genes. We extracted several hundred high-confidence genes at the intersection of multiple curated lists involved in cilia, cell division, and photosynthesis, illustrating the power of our method. Surprisingly, Chlamydomonas experiments retained a significant rhythmic component across the transcriptome, suggesting an underappreciated variable during sample collection, even in samples collected in constant light. Our results therefore document substantial residual synchronization in batch cultures, contrary to assumptions of asynchrony. We provide step-by-step protocols for the analysis of co-expression across transcriptome data sets from Chlamydomonas and other species to help foster gene function discovery.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRSDate not supplied

Aqueous alteration of Cb-type asteroid Ryugu

The samples from the asteroid Ryugu, which returned to Earth in the winter of 2020 [1], were stored under pure Nitrogen conditions at the Extraterrestrial Materials Curation Center of ISAS. After basic description [2-3], they were distributed to six initial analysis teams in Japan in June 2021. The initial analysis "Stone" team, which was responsible for the analysis of coarse particles (>1 mm in size), consisted of about 150 scientists from Japan and abroad, and conducted a series of analyses We analyzed sixteen coarse Ryugu particles 1 ~ 8 mm in size: six from the 1st touch-down site and ten from the 2nd touch-down site. Individual coarse samples were cut by Xe-FIB or wire-saw to expose particular objects or textures to be exposed on the surface based on 3D structure and element distribution obtained by synchrotron X-ray CT analysis and XRF analysis, respectively. FE-SEM/EDS and FE-EPMA/WDS analysis were made on all polished sections. TEM observation of many FIB sections was made to see microstructures and to compare with carbonaceous chondrites. Many other analyses were carried out to characterize mineralogical and compositional properties and summary of the analysis procedures is described in [4]. X-ray CT analysis showed that all sixteen Ryugu particles are composed of fine-grained material, with no chondrules and CAIs larger than 100 μm in size. FE-EPMA observation showed that Ryugu samples are breccias, consisting of many small rock fragments of different compositions, lithologies, and histories. The most common lithology includes Mg-rich saponite and serpentine, dolomite, magnesite, hydroxyapatite, pyrrhotite, and magnetite as main constituents. The mineralogy of this major lithology supports the classification of Ryugu samples as CI chondrites, which experienced extensive aqueous alteration in Ryugu’s parent asteroid. Based on the obtained mineralogical properties, we performed chemical modeling of aqueous alteration of Ryugu’s parent asteroid [5]. Numerical simulations [6-8] to reproduce thermal history and impact-induced destruction of the Ryugu’s parent asteroid were also carried out using mineralogical and physical properties of the Ryugu samples. In the talk, I would like to explain the conditions of aqueous alteration occurred in the parent asteroid of Ryugu in order to show how the water in the asteroid changed the mineralogy and chemistry of the nebular dust.

T. Nakamura↗
NASA NTRSDate not supplied

Open Science for Plants in Space: Improvements in NASA's Open Science Data Repository

Upcoming deep space missions will rely on plants for crew and ecosystem health. Open access space biology data enables scientists to examine the biological responses of plants to ionizing radiation, altered gravity, elevated CO2, and many other abiotic stressors. NASA has declared 2023 as the ‘Year of Open Science’ and created a 5-year Transform to Open Science (TOPS) initiative designed to rapidly transform the agency toward an inclusive culture of open science. NASA’s Open Science Data Repository (OSDR) combines two databases, GeneLab and Ames Life Sciences Data Archive (ALSDA) to maximize access to standardized ‘omics (e.g., transcriptomics, proteomics) and phenotypic data (e.g., microscopy, biomass), respectively. Current OSDR standards include the ISA (Investigation-Study-Assay) experiment model, assay metadata configurations, and standardized terminology and ontologies. In 2024 OSDR will include a new suite of features for improved FAIR compliance including downloadable plant metadata templates, data submission tools and overall improved AI-readiness of plant datasets. AI/ML methods can be helpful tools to overcome the inherent challenges of space biology research (small sample size, sparse and heterogeneous data etc.). However these methods are built on an assumption of normalized and well-curated data. OSDR’s new curation tools will improve users ability to leverage ML and AI methods to model space biology data and better understand the complex effects of spaceflight on living systems across hierarchical biological levels. We look forward to sharing our advances with the spaceflight community.

FAIR↗
NASA NTRSDate not supplied

A Brief History of the Curation of Genesis Sapphire Solar Wind Collectors

Commercial, high purity semiconductor sapphire (AKA corundum) wafers were used as one of the passive solar wind collector materials on the Genesis sample return mission because it exhibited lower diffusion rates for alkali elements than silicon and had sufficiently low alkali blanks. The 20 whole hexagons of sapphire flown on the Genesis spacecraft were distributed among the solar wind (SW) regimes as follows: 8 bulk solar wind (plus two half hexagons), 4 coronal mass ejection (CME), 4 coronal hole (CH), and 4 interstream (IS). Excellent overviews: a) collector material properties presented in [1] and b) solar wind environment experienced by collectors presented in [2].

Genesis sample return mission↗
NASA NTRS2018

The Apollo Sample Suite: 50 Years of Solar System Insight

The Apollo program was undoubtable a crowning achievement in human history. In addition to the obvious cultural significance, scientific results from the Apollo program had a lasting impression on a range of scientific fields, none more so that the effect the samples had on the fields of geology and cosmochemistry. The six Apollo missions collected 382 kg of rock, regolith, and core samples from geologically diverse locations on the Moon. In the nearly 50 years since the first samples were returned, there have been over 3000 different requests for samples, each yielding insights into fields as disparate as biology, medicine, astronomy, engineering, material science, and of course geology. Early studies of the Apollo samples revealed primary insights into the origin and evolution of the Moon, and of the Earth-Moon system, but the results also had implications for bodies throughout the solar system, e.g., defining crater counting rates. Over the decades, continued study of the Apollo samples by new generations of scientists using new instruments have continued to yield significant new discoveries, including the presence of endogenous water in the Moon and the possible presence of a lunar cataclysm, that in turn has contributed to new models of solar system formation and evolution. The Apollo samples have often been used as a proxy for studying other bodies like Mercury or asteroids. The Apollo samples have also directly contributed to the interpretation of remotely sensed data sets, including their use as ground truth for both Clementine and Lunar Prospector global geochemical maps. Despite the Apollo samples being a static collection, recent efforts will ensure that investigators continue to have access to new samples. For example, there was a recent solicitation for study of previously unopened Apollo samples in vacuum-sealed containers, as well as new access to samples stored frozen or in a He atmosphere. Similarly, the use of X-ray computed tomography as part of the curation process is identifying new clasts within polymict breccias that are available for study. Finally, the MoonDB project is putting all previously published lunar geochemical analyses into a searchable database, which should facilitate new investigations.

Zeigler, Ryan↗
NASA NTRS2017

The NASA Ames Research Center Institutional Scientific Collection: History, Best Practices and Scientific Opportunities

The NASA Ames Life Sciences Institutional Scientific Collection (ISC), which is composed of the Ames Life Sciences Data Archive (ALSDA) and the Biospecimen Storage Facility (BSF), is managed by the Space Biosciences Division and has been operational since 1993. The ALSDA is responsible for archiving information and animal biospecimens collected from life science spaceflight experiments and matching ground control experiments. Both fixed and frozen spaceflight and ground tissues are stored in the BSF within the ISC. The ALSDA also manages a Biospecimen Sharing Program, performs curation and long-term storage operations, and makes biospecimens available to the scientific community for research purposes via the Life Science Data Archive public website (https:lsda.jsc.nasa.gov). As part of our best practices, a viability testing plan has been developed for the ISC, which will assess the quality of archived samples. We expect that results from the viability testing will catalyze sample use, enable broader science community interest, and improve operational efficiency of the ISC. The current viability test plan focuses on generating disposition recommendations and is based on using ribonucleic acid (RNA) integrity number (RIN) scores as a criteria for measurement of biospecimen viablity for downstream functional analysis. The plan includes (1) sorting and identification of candidate samples, (2) conducting a statiscally-based power analysis to generate representaive cohorts from the population of stored biospecimens, (3) completion of RIN analysis on select samples, and (4) development of disposition recommendations based on the RIN scores. Results of this work will also support NASA open science initiatives and guides development of the NASA Scientific Collections Directive (a policy on best practices for curation of biological collections). Our RIN-based methodology for characterizing the quality of tissues stored in the ISC since the 1980s also creates unique scientific opportunities for temporal assessment across historical missions. Support from the NASA Space Biology Program and the NASA Human Research Program is gratefully acknowledged.

ALSDA↗
NASA NTRS2005

Ultrasonic Micro-Blades for the Rapid Extraction of Impact Tracks from Aerogel

The science return of NASA's Stardust Mission with its valuable cargo of cometary debris hinges on the ability to efficiently extract particles from silica aerogel collectors. The current method for extracting cosmic dust impact tracks is a mature procedure involving sequential perforation of the aerogel with glass needles on computer controlled micromanipulators. This method is highly successful at removing well-defined aerogel fragments of reasonable optical clarity while causing minimal damage to the surrounding aerogel collector tile. Such a system will be adopted by the JSC Astromaterials Curation Facility in anticipation of Stardust s arrival in early 2006. In addition to Stardust, aerogel is a possible collector for future sample return missions and is used for capture of hypervelocity ejecta in high power laser experiments of interest to LLNL. Researchers will be eager to obtain Stardust samples for study as quickly as possible, and rapid extraction tools requiring little construction, training, or investment would be an attractive asset. To this end, we have experimented with micro-blades for the Stardust impact track extraction process. Our ultimate goal is a rapid extraction system in a clean electron beam environment, such as an SEM or dual-beam FIB, for in situ sample preparation, mounting and analysis.

Ishii, H. A.↗
DOE OSTI2016

Reconstruction of the regulatory network for Bacillus subtilis and reconciliation with gene expression data

Here, we introduce a manually constructed and curated regulatory network model that describes the current state of knowledge of transcriptional regulation of B. subtilis . The model corresponds to an updated and enlarged version of the regulatory model of central metabolism originally proposed in 2008. We extended the original network to the whole genome by integration of information from DBTBS, a compendium of regulatory data that includes promoters, transcription factors (TFs), binding sites, motifs and regulated operons. Additionally, we consolidated our network with all the information on regulation included in the SporeWeb and Subtiwiki community-curated resources on B. subtilis . Finally, we reconciled our network with data from RegPrecise, which recently released their own less comprehensive reconstruction of the regulatory network for B. subtilis . Our model describes 275 regulators and their target genes, representing 30 different mechanisms of regulation such as TFs, RNA switches, Riboswitches and small regulatory RNAs. Overall, regulatory information is included in the model for approximately 2500 of the ~4200 genes in B. subtilis 168. In an effort to further expand our knowledge of B. subtilis regulation, we reconciled our model with expression data. For this process, we reconstructed the Atomic Regulons (ARs) for B. subtilis , which are the sets of genes that share the same “ON” and “OFF” gene expression profiles across multiple samples of experimental data. We show how atomic regulons for B. subtilis are able to capture many sets of genes corresponding to regulated operons in our manually curated network. Additionally, we demonstrate how atomic regulons can be used to help expand or validate the knowledge of the regulatory networks by looking at highly correlated genes in the ARs for which regulatory information is lacking. During this process, we were also able to infer novel stimuli for hypothetical genes by exploring the genome expression metadata relating to experimental conditions, gaining insights into novel biology.

59 BASIC BIOLOGICAL SCIENCES↗