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At least 73 records · Page 4

Identification of ancestral gnathostome Gli3 enhancers with activity in mammals

Abnormal expression of the transcriptional regulator and hedgehog (Hh) signaling pathway effector Gli3 is known to trigger congenital disease, most frequently affecting the central nervous system (CNS) and the limbs. Accurate delineation of the genomic cis-regulatory landscape controlling Gli3 transcription during embryonic development is critical for the interpretation of noncoding variants associated with congenital defects. Here, we employed a comparative genomic analysis on fish species with a slow rate of molecular evolution to identify seven previously unknown conserved noncoding elements (CNEs) in Gli3 intronic intervals (CNE15–21). Transgenic assays in zebrafish revealed that most of these elements drive activities in Gli3 expressing tissues, predominantly the fins, CNS, and the heart. Intersection of these CNEs with human disease associated SNPs identified CNE15 as a putative mammalian craniofacial enhancer, with conserved activity in vertebrates and potentially affected by mutation associated with human craniofacial morphology. Finally, comparative functional dissection of an appendage-specific CNE conserved in slowly evolving fish (elephant shark), but not in teleost (CNE14/hs1586) indicates co-option of limb specificity from other tissues prior to the divergence of amniotes and lobe-finned fish. In conclusion, these results uncover a novel subset of intronic Gli3 enhancers that arose in the common ancestor of gnathostomes and whose sequence components were likely gradually modified in other species during the process of evolutionary diversification.

59 BASIC BIOLOGICAL SCIENCES↗

Manipulability, force, and compliance analysis for planar continuum manipulators

Continuum manipulators, inspired by the natural capabilities of elephant trunks and octopus tentacles, may find niche applications in areas like human-robot interaction, multiarm manipulation, and unknown environment exploration. However, their true capabilities will remain largely inaccessible without proper analytical tools to evaluate their unique properties. Ellipsoids have long served as one of the foremost analytical tools available to the robotics researcher, and the purpose of this paper is to first formulate, and then to examine, three types of ellipsoids for continuum robots: manipulability, force, and compliance.

Non-NASA Center↗

Does provable absence of barren plateaus imply classical simulability?

A large amount of effort has recently been put into understanding the barren plateau phenomenon. In this perspective article, we face the increasingly loud elephant in the room and ask a question that has been hinted at by many but not explicitly addressed: Can the structure that allows one to avoid barren plateaus also be leveraged to efficiently simulate the loss classically? We collect evidence-on a case-by-case basis-that many commonly used models whose loss landscapes avoid barren plateaus can also admit classical simulation, provided that one can collect some classical data from quantum devices during an initial data acquisition phase. This follows from the observation that barren plateaus result from a curse of dimensionality, and that current approaches for solving them end up encoding the problem into some small, classically simulable, subspaces. Thus, while stressing that quantum computers can be essential for collecting data, our analysis sheds doubt on the information processing capabilities of many parametrized quantum circuits with provably barren plateau-free landscapes. We end by discussing the (many) caveats in our arguments including the limitations of average case arguments, the role of smart initializations, models that fall outside our assumptions, the potential for provably superpolynomial advantages and the possibility that, once larger devices become available, parametrized quantum circuits could heuristically outperform our analytic expectations.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Quantitative Predictive Theories through Integrating Quantum, Statistical, Equilibrium, and Nonequilibrium Thermodynamics

Today's thermodynamics is largely based on the combined law for equilibrium systems and statistical mechanics derived by Gibbs in 1873 and 1901, respectively, while irreversible thermodynamics for nonequilibrium systems resides essentially on the Onsager Theorem as a separate branch of thermodynamics developed in 1930s. Between them, quantum mechanics was invented and was quantitatively solved in terms of density functional theory (DFT) in 1960s. Furthermore, these three scientific domains operate based on different principles and are very much separated from each other. In analogy to the parable of the blind men and the elephant articulated by Perdew, they individually represent different portions of a complex system and thus are incomplete by themselves alone, resulting in the lack of quantitative agreement between their predictions and experimental observations. Over the last two decades, the author's group has developed a multiscale entropy approach (recently termed as zentropy theory) that integrates DFT-based quantum mechanics and Gibbs statistical mechanics and is capable of accurately predicting entropy and free energy of complex systems. Furthermore, in combination with the combined law for nonequilibrium systems developed by Hillert, the author developed the theory of cross phenomena beyond the phenomenological Onsager Theorem. The zentropy theory and theory of cross phenomena jointly provide quantitative predictive theories for systems from electronic to any observable scales as reviewed in the present work.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Redshift space power spectrum beyond Einstein-de Sitter kernels

Abstract We develop a framework to compute the redshift space power spectrum (PS), with kernels beyond Einstein-de Sitter (EdS), that can be applied to a wide variety of generalized cosmologies. We build upon a formalism that was recently employed for standard cosmology in Chen, Vlah & White (2020), and utilize an expansion of the density-weighted velocity moment generating function that explicitly separates the magnitude of the k-modes and their angle to the line-of-sight direction dependencies. We compute the PS for matter and biased tracers to 1-loop Perturbation Theory (PT) and show that the expansion has a correct infrared and ultraviolet behavior, free of unwanted divergences. We also add Effective Field Theory (EFT) counterterms, necessary to account for small-scale contributions to PT, and employ an IR-resummation prescription to properly model the smearing of the BAO due to large scale bulk flows within Standard-PT. To demonstrate the applicability of our formalism, we apply it on the ΛCDM and the Hu-Sawicki f(R) models, and compare our numerical results against the elephant suite of N-body simulations, finding very good agreement up to k = 0.27 Mpc -1 h at z = 0.5 for the first three non-vanishing Legendre multipoles of the PS. To our knowledge, the model presented in this work is the most accurate theoretical EFT-PT for modified gravity to date, being the only one that accounts for beyond linear local biasing in redshift-space. Hence, we argue our RSD modeling is a promising tool to construct theoretical templates in order to test deviations from ΛCDM using real data obtained from the next stage of cosmological surveys such as DESI and LSST.

Astronomy & Astrophysics↗

Adaptive Protection of Scientific Backbone Networks Using Machine Learning

In this article, we propose a new protection scheme for backbone networks to guarantee high service availability. The presented scheme does not require any reconfiguration immediately after the failure (i.e., it is proactive). At the same time, it does not require any reserved backup network resources either. To achieve these seemingly contradictory goals, we utilize the recent advancements in Machine Learning (ML) to implement a network intelligence that periodically re-allocates the unused capacity as protection bandwidth to meet the service availability requirements of each connection. Our goal is achieved by two components (1) predicting the traffic for the next period on each link, and (2) intelligently selecting the best fit dedicated protection scheme for the next period depending on the estimated unused (spare) bandwidth and the previous service availability violations. Note that re-allocating protection bandwidth affects neither the operational connections nor the current best practice of operators to over-provision network bandwidth to support elephant flows. Finally, we provide a case study on the real traffic from Energy Sciences Network (ESnet), a high-speed, international scientific backbone network. The key benefit of our framework is that adaptively utilizing the over-provisioned bandwidth for spare capacity is sufficient to improve the availability from three-nines to five-nines (in ESnet for the 30 examined connections). The drawback is negligible bandwidth limitations; the user perceives a minor and very temporal bandwidth limitation in less than 0.1% of the time.

42 ENGINEERING↗

The Functional Significance of Bacterial Predators

The word “predator” may conjure images of leopards killing and eating impala on the African savannah or of great white sharks attacking elephant seals off the coast of California. But microorganisms are also predators, including bacteria that kill and eat other bacteria.

18O-H2O↗

Indira: intent-based networking and rendering for networks (Indira) v1

Intelligent Network Deployment Intent Renderer Application an interactive network assistant that will help us configure a data path between two scientific end-point groups (EPGs) to optimize the transfer of elephant data flows. This tool is able to talk to scientists gather network requirements and then convert to network programming code and automate the end-to-end provisioning.

Pouyoul, Eric↗

Turbulence in Core-collapse Supernovae

It is understood in a general sense that turbulent fluid motion below the shock front in a core-collapse supernova stiffens the effective equation of state of the fluid and aids in the revival of the explosion. However, when one wishes to be precise and quantify the amount of turbulence in a supernova simulation, one immediately encounters the problem that turbulence is difficult to define and measure. Using the 3D magnetohydrodynamic code ELEPHANT, we study how different definitions of turbulence change one’s conclusions about the amount of turbulence in a supernova and the extent to which it helps the explosion. We find that, while all the definitions of turbulence we use lead to a qualitatively similar growth pattern over time of the turbulent kinetic energy in the gain region, the total amount of turbulent kinetic energy, and especially the ratios of turbulent to total kinetic energy, distinguish them. Some of the definitions appear to indicate turbulence is a necessary contributor to the explosion, and others indicate it is not. The different definitions also produce turbulence maps with different correlations with maps of the enstrophy, a quantity widely regarded as also indicating the presence of turbulence. We also compute the turbulent adiabatic index and observe that, in regions of low enstrophy, this quantity is sensitive to the definition used. As a consequence, the effective adiabatic index depends upon the method used to measure the turbulence, and thus it alters one’s conclusions regarding the impact of turbulence within the supernova.

computational astronomy↗

Antarctic Meteorite Newsletter, volume 6, number 2

Meteorites from the 1981 and 1982 Antarctic collection are listed showing classification, weight, degree of weathering, degree of fractionation, % Fa, and % Fs. Physical and petrigraphic characteristics are described for 23 samples from the Allan Hills, Thiel Mountains, the Pecora Escarpment, and the Elephant Moraine locations.

Source record↗

Martian gases in an Antarctic meteorite?

Significant abundances of trapped argon, krypton, and xenon have been measured in shock-altered phases of the achondritic meteorite Elephant Moraine 79001 from Antarctica. The relative elemental abundances, the high ratios of argon-40 to argon-36 (equal to or greater than 2000), and the high ratios of xenon-129 to xenon-132 (equal to or greater than 2.0) of the trapped gas more closely resemble Viking data for the Martian atmosphere than data for noble gas components typically found in meteorites. These findings support earlier suggestions, made on the basis of geochemical evidence, that shergottites and related rare meteorites may have originated from the planet Mars.

Bogard, D. D.↗

Comparison of Yamato and Victoria Land polymict eucrites - A view from mineralogical and isotopic studies

New interior samples of four Yamato polymict eucrites (Y74159, Y74450, Y75011, and Y75015) have been studied by electron microprobe, transmission electron microscope, and X-ray diffraction techniques, and compared with several samples of the Victoria Land polymict eucrites. These same samples have been analysed using Rb-Sr and Nd-Sm isotopic systematics. Several grains of inverted pigeonite, with blebby augite similar to those in Binda and Moama, have been identified in all four Yamato eucrites. Coarse-grained meso-stasis-rich subophitic basalts, which contain Mg-rich pigeonite (with Fe-rich olivine veinlets) zoned outward to a subcalcic ferroaugite rims, have also been found. These unique clasts were not found in ALH76005, 77302, 78040, 7858, and 78165 and EET eucrites. The tight grouping of Rb/Sr and Sm/Nd ratos, and similar modal compositions of the Yamato group indicate that they are most likely to be pieces from a single fall, and distinct from the ALH and EET groups. However, the Yamato, Allan Hills, and Elephant Moraine groups may sample a few distinct magmas or similar but different source regions on the same parent body.

Takeda, H.↗

Petrogenesis of the SNC (shergottites, nakhlites, chassignites) meteorites - Implications for their origin from a large dynamic planet, possibly Mars

Comprehensive chemical data are presented on the shergottites Shergotty, Zagami, Allan Hills (ALHA) 77005, and the new member Elephant Moraine (EETA) 79001 using results of sequential instrumental and radiochemical neutron activation analysis. The close relationship of the Antarctic shergotites indicates that ALHA 77005 is a residual source produced by incongruent melting of a source similar in bulk composition to EETA 79001A and that EETA 79001B and the interstitial phases in EETA 79001A are the melts produced by such melting episodes. The large ion lithophile LIL) trace element abundanced of the shergottites require variable but extensive degrees of nomodal melting of isotopically constrained parent sources. The SNG sources are consistent with their derivation by extensive fractionation of a primitive magma initially produced from a source having chondritic refractory LIL trace element abundances. Petrogenetic and age relationships among SNC meteorites suggest a single complex-provenance on a dynamic planet not unlike earth, probably Mars.

Smith, M. R.↗

Noble gas contents of shergottites and implications for the Martian origin of SNC meteorites

Three meteorites belonging to the rare group of SNC achondrites, which may have originated in the planet Mars, have been subjected to noble gas isotopic concentration measurements. The elemental and isotopic ratios obtained are unlike those for any other noble gas components except those obtained in analyses of the Martian atmosphere by Viking spacecraft. It is hypothesized that the Kr and Xe gases represent a portion of the Martian atmosphere which was shock-implanted in the case of Elephant Moraine A79001, and that they constitute direct evidence of a Martian origin for the shergottite meteorites. If the SNC meteorites were ejected from Mars at the shergottite shock age of about 180 My ago, they must have been objects more than 6 m in diameter which experienced at least three space collisions to initiate cosmic ray exposure.

Bogard, D. D.↗

Clay-mineraloid weathering products in Antarctic meteorites

The production of clay mineraloids (CMs) in the weathering of stony meteorites recovered in the Allan Hills and Elephant Moraine areas of Antarctica is investigated, applying electron microbeam analysis, pyrolysis/mass spectroscopy, X-ray diffractometry, and differential scanning calorimetry to whole-rock chips from two eucrites, two diogenites, and an H5 chondrite. The data are presented in tables, graphs, and photomicrographs and characterized in detail. Massive to incipient-vermicular CM formations with smectitelike or micalike compositions and indications of poor crystallization are observed and attributed to hydrocryogenic diagenesis (with little or no liquid water) on time scales of 10-1000 kyr. The need to take the compositional effects of weathering into account before attempting to reconstruct the preterrestrial histories of meteorites is stressed.

Gooding, James L.↗

Terrestrial Kr-81-Kr ages of Antarctic meteorites

The production rate of Ar-38 in meteorites P(38), has been determined, as a function of the sample's chemical composition, from Kr-81-Kr exposure ages of four eucrite falls. The cosmogenic Kr-78/Kr-83 ratio is used to estimate the shielding dependence of P(38). From the 'true' Ar-38 exposure ages and the apparent Kr-81-Kr exposure ages of nine Antarctic eucrite finds, terrestrial ages are calculated. They range from about 300,000 ages (Pecora Escarpment 82502) to very recent falls (Thiel Mountains 82502). Polymict eucrites from the Allan Hills (A78132, A79017, and A81009) have within the limits of error the same exposure age (15.2 x 10 to the 6th ages) and the same terrestrial age (110,000 ages). This is taken as strong evidence that these meteorites are fragments of the same fall. A similar case is the Elephant Moraine polymict eucrites A79005, A79006, and 82600 with an exposure age of 26 x 10 to the 6th ages and a terrestrial age of 180,000 ages. EETA 79004 may be different from this group because its exposure age and terrestrial age are 21 x 10 to the 6th ages and 250,000 ages, respectively. The distribution of terrestrial ages of Allan Hills meteorites is discussed. Meteorites from this blue ice field have two sources: directly deposited falls and meteorites transported to the Allen Hills inside the moving Antarctic ice sheet. During the surface residence time meteorites decompose due to weathering processes. The weathering 'half-life' is about 160,000 ages. From the different age distributions of Allan Hills and Yamato meteorites, it is concluded that meteorite concentrations of different Antarctic ice fields need different explanations.

Freundel, M.↗

Calcium carbonate and sulfate of possible extraterrestrial origin in the EETA 79001 meteorite

Two varieties of Ca-carbonate were found in a total of three interior (greater than 2-cm depth) samples of glass inclusions from the shergottite meteorite, Elephant Moraine, Antarctica, A79001. Two of the samples, including the largest deposit around a vug near the center of the meteorite (8-cm depth), contained veins of granular calcite with significant Mg and P, either as Mg-calcite with dissolved P or as calcite with very finely intergrown Mg-bearing phosphate. The second variety, which occurred in a third sample with a previously documented high concentration of trapped gases, consisted of disseminated 10-20-micron anhedral grains of nearly pure CaCO3 and was intimately associated with laths and needles of Ca-sulfate (possibly gypsum). All evidence considered, it is probable that both varieties of Ca-carbonate (and the Ca-sulfate) formed on a planetary body (probably Mars) before the meteorite fell on earth.

Gooding, James L.↗