Engineering topics

Xu, Yan

Publications and source records attributed to Xu, Yan.

At least 73 records · Page 4

DOE OSTI2017

Witnessing a Large-scale Slipping Magnetic Reconnection along a Dimming Channel during a Solar Flare

We report the intriguing large-scale dynamic phenomena associated with the M6.5 flare (SOL2015-06-22T18:23) in NOAA active region 12371, observed by RHESSI , Fermi , and the Atmospheric Image Assembly (AIA) and Magnetic Imager (HMI) on the Solar Dynamics Observatory ( SDO ). The most interesting feature of this event is a third ribbon (R3) arising in the decay phase, propagating along a dimming channel (seen in EUV passbands) toward a neighboring sunspot. The propagation of R3 occurs in the presence of hard X-ray footpoint emission and is broadly visible at temperatures from 0.6 MK to over 10 MK through the differential emission measure analysis. The coronal loops then undergo an apparent slipping motion following the same path of R3, after a ∼80 minute delay. To understand the underlying physics, we investigate the magnetic configuration and the thermal structure of the flaring region. Our results are in favor of a slipping-type reconnection followed by the thermodynamic evolution of coronal loops. In comparison with those previously reported slipping reconnection events, this one proceeds across a particularly long distance (∼60 Mm) over a long period of time (∼50 minutes) and shows two clearly distinguished phases: the propagation of the footpoint brightening driven by nonthermal particle injection and the apparent slippage of loops governed by plasma heating and subsequent cooling.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2017

Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform, Version 1.5 and 1.x.

EDGE bioinformatics was developed to help biologists process Next Generation Sequencing data (in the form of raw FASTQ files), even if they have little to no bioinformatics expertise. EDGE is a highly integrated and interactive web-based platform that is capable of running many of the standard analyses that biologists require for viral, bacterial/archaeal, and metagenomic samples. EDGE provides the following analytical workflows: quality trimming and host removal, assembly and annotation, comparisons against known references, taxonomy classification of reads and contigs, whole genome SNP-based phylogenetic analysis, and PCR analysis. EDGE provides an intuitive web-based interface for user input, allows users to visualize and interact with selected results (e.g. JBrowse genome browser), and generates a final detailed PDF report. Results in the form of tables, text files, graphic files, and PDFs can be downloaded. A user management system allows tracking of an individual’s EDGE runs, along with the ability to share, post publicly, delete, or archive their results.

Chain, Patrick↗

DOE OSTI2017

Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform, Version 1.5 and 1.x.

Chain, Patrick↗

DOE OSTI2017

High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp

ABSTRACT Here, we report the high-quality draft genome sequences of four phylogenetically diverse lignocellulose-degrading bacteria isolated from tropical soil ( Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.) to elucidate the genetic basis of their ability to degrade lignocellulose. These isolates may provide novel enzymes for biofuel production.

09 BIOMASS FUELS↗

DOE OSTI2017

EDGE 2017 R&D 100 Entry with Appendix

Diabetes, infertility, cancer, and Alzheimer’s disease—the key to one day preventing or even curing such afflictions and diseases (both infectious and genetically driven) may be locked in our own genetic code and the code of microorganisms that inhabit our bodies. The study of this code, known as genomics, has recently become much more promising as a result of two things: (1) vast improvements in high-throughput, nextgeneration sequencing (NSG), and (2) an exponential decrease in the cost of such sequencing. For example, it originally cost approximately $3 billion to sequence the human genome; today, this genome could be resequenced for less than $1,000.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2017

Global Energetics of Solar Flares. V. Energy Closure in Flares and Coronal Mass Ejections

In this study we synthesize the results of four previous studies on the global energetics of solar flares and associated coronal mass ejections (CMEs), which include magnetic, thermal, nonthermal, and CME energies in 399 solar M- and X-class flare events observed during the first 3.5 yr of the Solar Dynamics Observatory (SDO) mission. Our findings are as follows. (1) The sum of the mean nonthermal energy of flare-accelerated particles (E{sub nt}), the energy of direct heating (E{sub dir}), and the energy in CMEs (E{sub CME}), which are the primary energy dissipation processes in a flare, is found to have a ratio of (E{sub nt}+E{sub dir}+E{sub CME})/E{sub mag}=0.87±0.18, compared with the dissipated magnetic free energy E{sub mag}, which confirms energy closure within the measurement uncertainties and corroborates the magnetic origin of flares and CMEs. (2) The energy partition of the dissipated magnetic free energy is: 0.51 ± 0.17 in nonthermal energy of ⩾6 keV electrons, 0.17 ± 0.17 in nonthermal ⩾1 MeV ions, 0.07 ± 0.14 in CMEs, and 0.07 ± 0.17 in direct heating. (3) The thermal energy is almost always less than the nonthermal energy, which is consistent with the thick-target model. (4) The bolometric luminosity in white-light flares is comparable to the thermal energy in soft X-rays (SXR). (5) Solar energetic particle events carry a fraction ≈0.03 of the CME energy, which is consistent with CME-driven shock acceleration. (6) The warm-target model predicts a lower limit of the low-energy cutoff at e{sub c}≈6 keV, based on the mean peak temperature of the differential emission measure of T {sub e} = 8.6 MK during flares. This work represents the first statistical study that establishes energy closure in solar flare/CME events.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2017

Microstructure evolution and dynamic recrystallization behavior of a powder metallurgy Ti-22Al-25Nb alloy during hot compression

The flow behavior of a powder metallurgy (P/M) Ti-22Al-25Nb alloy during hot compression tests has been investigated at a strain rate of 0.01 s{sup −1} and a temperature range of 980–1100 °C up to various true strains from 0.1 to 0.9. The effects of deformation temperature and strain on microstructure characterization and nucleation mechanisms of dynamic recrystallization (DRX) were assessed by means of Optical microscope (OM), electron backscatter diffraction (EBSD) and transmission electron microscope (TEM) techniques, respectively. The results indicated that the process of DRX was promoted by increasing deformation temperature and strain. By regression analysis, a power exponent relationship between peak stresses and sizes of stable DRX grains was developed. In addition, it is suggested that the discontinuous dynamic recrystallization (DDRX) and continuous dynamic recrystallization (CDRX) controlled nucleation mechanisms for DRX grains operated simultaneously during the whole hot process, and which played the leading role varied with hot process parameters of temperature and strain. It was further demonstrated that the CDRX featured by progressive subgrain rotation was weakened by elevating deformation temperatures. - Highlights: •Flow behavior of a P/M Ti-22Al-25Nb is studied by hot compression tests. •Microstructure evolution of alloy is affected by deformation temperature and strain. •The relationship between peak stress and stable DRX grain size was developed. •The process of DRX was promoted by increasing deformation temperature and strain. •Nucleation mechanisms of DRX were identified by EBSD analysis and TEM observation.

36 MATERIALS SCIENCE↗

DOE OSTI2017

Structural Basis of Alcohol Inhibition of the Pentameric Ligand-Gated Ion Channel ELIC

Not Available

Chen, Qiang↗

DOE OSTI2016

Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform

Continued advancements in sequencing technologies have fueled the development of new sequencing applications and promise to flood current databases with raw data. A number of factors prevent the seamless and easy use of these data, including the breadth of project goals, the wide array of tools that individually perform fractions of any given analysis, the large number of associated software/hardware dependencies, and the detailed expertise required to perform these analyses. To address these issues, we have developed an intuitive web-based environment with a wide assortment of integrated and cutting-edge bioinformatics tools in pre-configured workflows. These workflows, coupled with the ease of use of the environment, provide even novice next-generation sequencing users with the ability to perform many complex analyses with only a few mouse clicks and, within the context of the same environment, to visualize and further interrogate their results. As a result, this bioinformatics platform is an initial attempt at Empowering the Development of Genomics Expertise (EDGE) in a wide range of applications for microbial research.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2016

Versatile Thermochromic Supramolecular Materials Based on Competing Charge Transfer Interactions

Stimuli‐responsive supramolecular materials are of paramount importance for a broad range of applications. It is essential to impart versatility, sustainability, and scalability into these materials. Herein the authors report the design and synthesis of a new class of thermochromic supramolecular materials, which can easily be processed from water via a reversible sol–gel transition. The supramolecular materials are composed of a bis‐bipyridinium acceptor, a π‐electron‐rich naphthalene derivative donor, and halogen counterions. Long helical nanofibers can be assembled in water, gelating at room temperature. Inked designs, thin films, and aerogels are solution‐processed to exhibit thermochromic behavior based on competing π → π* and n → π* charge transfer interactions. By using different π‐electron rich donors, and counterions, the authors demonstrate that both the color observed at room temperature and at high temperatures can be tailored. The results open up the door to develop novel amphiphile‐based thermochromes with water processability and a large tunable color palette.

Yuan, Tianyu↗

DOE OSTI2016

MULTI-WAVELENGTH STUDY OF TRANSITION REGION PENUMBRAL SUBARCSECOND BRIGHT DOTS USING IRIS AND NST

Using high-resolution transition region (TR) observations taken by the Interface Region Imaging Spectrograph ( IRIS ) mission, Tian et al. revealed numerous short-lived subarcsecond bright dots (BDs) above sunspots (mostly located in the penumbrae), which indicate yet unexplained small-scale energy releases. Moreover, whether or not these subarcsecond TR brightenings have any signature in the lower atmosphere and how they are formed are still not fully resolved. This paper presents a multi-wavelength study of the TR penumbral BDs using a coordinated observation of a near disk center sunspot with IRIS and the 1.6 m New Solar Telescope (NST) at the Big Bear Solar Observatory. NST provides high-resolution chromospheric and photospheric observations with narrowband H α imaging spectroscopy and broadband TiO images, respectively, complementary to IRIS TR observations. A total of 2692 TR penumbral BDs are identified from a 37 minute time series of IRIS 1400 Å slit-jaw images. Their locations tend to be associated more with downflowing and darker fibrils in the chromosphere, and weakly associated with bright penumbral features in the photosphere. However, temporal evolution analyses of the BDs show that there is no consistent and convincing brightening response in the chromosphere. These results are compatible with a formation mechanism of the TR penumbral BDs by falling plasma from coronal heights along more vertical and dense magnetic loops. The BDs may also be produced by small-scale impulsive magnetic reconnection taking place sufficiently high in the atmosphere that has no energy release in the chromosphere.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2016

Enhanced cell survival and paracrine effects of mesenchymal stem cells overexpressing hepatocyte growth factor promote cardioprotection in myocardial infarction

Poor cell survival post transplantation compromises the therapeutic benefits of mesenchymal stem cells (MSCs) in myocardial infarction (MI). Hepatocyte growth factor (HGF) is an important cytokine for angiogenesis, anti-inflammation and anti-apoptosis. This study aimed to evaluate the cardioprotective effects of MSCs overexpressing HGF in a mouse model of MI. The apoptosis of umbilical cord-derived MSCs (UC-MSCs) and HGF-UC-MSCs under normoxic and hypoxic conditions was detected. The conditioned medium (CdM) of UC-MSCs and HGF-UC-MSCs under a hypoxic condition was harvested and its protective effect on neonatal cardiomyocytes (NCMs) exposed to a hypoxic challenge was examined. UC-MSCs and HGF-UC-MSCs were transplanted into the peri-infarct region in mice following MI and heart function assessed 4 weeks post transplantation. The apoptosis of HGF-UC-MSCs under hypoxic conditions was markedly decreased compared with that of UC-MSCs. NCMs treated with HGF-UC-MSC hypoxic CdM (HGF-UC-MSCs-hy-CdM) exhibited less cell apoptosis in response to hypoxic challenge than those treated with UC-MSC hypoxic CdM (UC-MSCs-hy-CdM). HGF-UC-MSCs-hy-CdM released the inhibited p-Akt and lowered the enhanced ratio of Bax/Bcl-2 induced by hypoxia in the NCMs. HGF-UC-MSCs-hy-CdM expressed higher levels of HGF, EGF, bFGF and VEGF than UC-MSCs-hy-CdM. Transplantation of HGF-UC-MSCs or UC-MSCs greatly improved heart function in the mouse model of MI. Compared with UC-MSCs, transplantation of HGF-UC-MSCs was associated with less cardiomyocyte apoptosis, enhanced angiogenesis and increased proliferation of cardiomyocytes. This study may provide a novel therapeutic strategy for MSC-based therapy in cardiovascular disease.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2016

3D-SIFT-Flow for atlas-based CT liver image segmentation

Purpose: In this paper, the authors proposed a new 3D registration algorithm, 3D-scale invariant feature transform (SIFT)-Flow, for multiatlas-based liver segmentation in computed tomography (CT) images. Methods: In the registration work, the authors developed a new registration method that takes advantage of dense correspondence using the informative and robust SIFT feature. The authors computed the dense SIFT features for the source image and the target image and designed an objective function to obtain the correspondence between these two images. Labeling of the source image was then mapped to the target image according to the former correspondence, resulting in accurate segmentation. In the fusion work, the 2D-based nonparametric label transfer method was extended to 3D for fusing the registered 3D atlases. Results: Compared with existing registration algorithms, 3D-SIFT-Flow has its particular advantage in matching anatomical structures (such as the liver) that observe large variation/deformation. The authors observed consistent improvement over widely adopted state-of-the-art registration methods such as ELASTIX, ANTS, and multiatlas fusion methods such as joint label fusion. Experimental results of liver segmentation on the MICCAI 2007 Grand Challenge are encouraging, e.g., Dice overlap ratio 96.27% ± 0.96% by our method compared with the previous state-of-the-art result of 94.90% ± 2.86%. Conclusions: Experimental results show that 3D-SIFT-Flow is robust for segmenting the liver from CT images, which has large tissue deformation and blurry boundary, and 3D label transfer is effective and efficient for improving the registration accuracy.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2016

Simple synthesis of ZnO nanoflowers and its photocatalytic performances toward the photodegradation of metamitron

Highlights: • Fabrication of ZnO nanoflowers assembled from thin and uniform nanosheets. • The material possesses photocatalytic acitivity toward degradation of metamitron. • The catalyst features excellent cycling stability for at least 5 cycle times. • The promising mechanism of photocatalysis of metamitron is also discussed. - Abstract: Large-scale ZnO nanoflowers assembled from numerous thin and uniform nanosheets with a thickness of around 20 nm, were successfully prepared through a facile one-step hydrothermal synthesis route by using zinc acetate, sodium citrate and sodium hydroxide in water solution. The method was simple, green and effective. The obtained ZnO nanoflowers exhibited remarkable photocatalytic acitivity and good cycle stability for the degradation of metamitron under a 300 W of Osram{sup ®} ultra-vitalux lamp light emitting UV and visible radiation over 300–600 nm. UV–vis spectrophotometery was used to measure the rate of photodecomposition of metamitron. The results indicate that about 97% of the metamitron disappeared in the suspension of flower-like ZnO microspheres within four hours, and the degradation efficiency were not changed even after 5 cycle times.

36 MATERIALS SCIENCE↗

DOE OSTI2016

ULTRA-NARROW NEGATIVE FLARE FRONT OBSERVED IN HELIUM-10830 Å USING THE 1.6 m NEW SOLAR TELESCOPE

Solar flares are sudden flashes of brightness on the Sun and are often associated with coronal mass ejections and solar energetic particles that have adverse effects on the near-Earth environment. By definition, flares are usually referred to as bright features resulting from excess emission. Using the newly commissioned 1.6 m New Solar Telescope at Big Bear Solar Observatory, we show a striking “negative” flare with a narrow but unambiguous “dark” moving front observed in He i 10830 Å, which is as narrow as 340 km and is associated with distinct spectral characteristics in Hα and Mg ii lines. Theoretically, such negative contrast in He i 10830 Å can be produced under special circumstances by nonthermal electron collisions or photoionization followed by recombination. Our discovery, made possible due to unprecedented spatial resolution, confirms the presence of the required plasma conditions and provides unique information in understanding the energy release and radiative transfer in astronomical objects.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2016

Structure, stability, and evolution of magnetic flux ropes from the perspective of magnetic twist

We investigate the evolution of NOAA Active Region (AR) 11817 during 2013 August 10–12, when it developed a complex field configuration and produced four confined, followed by two eruptive, flares. These C-and-above flares are all associated with a magnetic flux rope (MFR) located along the major polarity inversion line, where shearing and converging photospheric flows are present. Aided by the nonlinear force-free field modeling, we identify the MFR through mapping magnetic connectivities and computing the twist number T{sub w} for each individual field line. The MFR is moderately twisted (|T{sub w}|<2) and has a well-defined boundary of high squashing factor Q. We found that the field line with the extremum |T{sub w}| is a reliable proxy of the rope axis, and that the MFR's peak |T{sub w}| temporarily increases within half an hour before each flare while it decreases after the flare peak for both confined and eruptive flares. This pre-flare increase in |T{sub w}| has little effect on the AR's free magnetic energy or any other parameters derived for the whole region, due to its moderate amount and the MFR's relatively small volume, while its decrease after flares is clearly associated with the stepwise decrease in the whole region's free magnetic energy due to the flare. We suggest that T{sub w} may serve as a useful parameter in forewarning the onset of eruption, and therefore, the consequent space weather effects. The helical kink instability is identified as the prime candidate onset mechanism for the considered flares.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2016

VALIDATION OF THE CORONAL THICK TARGET SOURCE MODEL

We present detailed 3D modeling of a dense, coronal thick-target X-ray flare using the GX Simulator tool, photospheric magnetic measurements, and microwave imaging and spectroscopy data. The developed model offers a remarkable agreement between the synthesized and observed spectra and images in both X-ray and microwave domains, which validates the entire model. The flaring loop parameters are chosen to reproduce the emission measure, temperature, and the nonthermal electron distribution at low energies derived from the X-ray spectral fit, while the remaining parameters, unconstrained by the X-ray data, are selected such as to match the microwave images and total power spectra. The modeling suggests that the accelerated electrons are trapped in the coronal part of the flaring loop, but away from where the magnetic field is minimal, and, thus, demonstrates that the data are clearly inconsistent with electron magnetic trapping in the weak diffusion regime mediated by the Coulomb collisions. Thus, the modeling supports the interpretation of the coronal thick-target sources as sites of electron acceleration in flares and supplies us with a realistic 3D model with physical parameters of the acceleration region and flaring loop.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2016

Bidding strategy for microgrid in day-ahead market based on hybrid stochastic/robust optimization

In this paper, we propose an optimal bidding strategy in the day-ahead market of a microgrid consisting of intermittent distributed generation (DG), storage, dispatchable DG and price responsive loads. The microgrid coordinates the energy consumption or production of its components and trades electricity in both the day-ahead and real-time markets to minimize its operating cost as a single entity. The bidding problem is challenging due to a variety of uncertainties, including power output of intermittent DG, load variation, day-ahead and real-time market prices. A hybrid stochastic/robust optimization model is proposed to minimize the expected net cost, i.e., expected total cost of operation minus total benefit of demand. This formulation can be solved by mixed integer linear programming. The uncertain output of intermittent DG and day-ahead market price are modeled via scenarios based on forecast results, while a robust optimization is proposed to limit the unbalanced power in real-time market taking account of the uncertainty of real-time market price. Numerical simulations on a microgrid consisting of a wind turbine, a PV panel, a fuel cell, a micro-turbine, a diesel generator, a battery and a responsive load show the advantage of stochastic optimization in addition to robust optimization.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗