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At least 343 records · Page 19

Determinants of serum cadmium levels in a Northern Italy community: A cross-sectional study

Introduction: Cadmium (Cd) is a heavy metal and a serious environmental hazard to humans. Some uncertainties still exist about major sources of Cd exposure in non-occupationally exposed subjects in addition to cigarette smoking, such as diet and outdoor air pollution. We sought to determine the influence of these sources on a biomarker of exposure, serum Cd concentration. Methods: We recruited 51 randomly selected residents from an Italian urban community, from whom we obtained detailed information about dietary habits and smoking habits, and a blood sample for serum Cd determination. We also assessed outdoor air Cd exposure, by modeling outdoor air levels of particulate matter ≤10 µm (PM{sub 10}) from motorized traffic at geocoded subjects’ residence. Results: In crude analysis, regression beta coefficients for dietary Cd, smoking and PM10 on serum Cd levels were 0.03 (95% CI -0.83 to 0.88), 6.96 (95% CI -0.02 to 13.95) and 0.62 (95% CI -0.19 to 1.43), respectively. In the adjusted analysis, regression beta coefficients were -0.34 (95% CI -1-40 to 0.71), 5.81 (95% CI -1.43 to 13.04) and 0.47 (95% CI -0.35 to 1.29), respectively. Conclusion: Cigarette smoking was the most important factor influencing serum Cd in our non-occupationally exposed population, as expected, while dietary Cd was not associated with this biomarker. Outdoor air pollution, as assessed through exposure to particulate matter generated by motorized traffic, was an additional source of Cd exposure. - Highlights: • Smoking markedly increases serum Cd levels in non-occupationally exposed individuals. • Overall dietary Cd intake shows little association with serum Cd levels. • Air pollution from motorized traffic increases serum Cd levels.

54 ENVIRONMENTAL SCIENCES↗

BMP2/Smad signaling pathway is involved in the inhibition function of fibroblast growth factor 21 on vascular calcification

Vascular calcification is extremely common and associated with major adverse cardiovascular events. Fibroblast growth factor (FGF) 21 has been identified as a potent metabolic regulator and a protector of the cardiovascular system. In this study, we aimed to investigate the effect of FGF21 on calcification of vascular smooth muscle cell (VSMC) and its mechanism. FGF21 inhibited beta-glycerophosphate (BGP) induced mineralization in VSMCs as determined by calcium concentration and Alizarin Red S. FGF21 suppressed BGP-induced BMP2/Smad signaling pathway components as well as osteoblast differentiation markers. FGF21 and Noggin could synergistically inhibit BGP-induced BMP2/Smad pathway expressions and calcification. Taken together, FGF21 inhibits vascular calcification in vitro by modulating BMP2/Smad signaling pathway.

60 APPLIED LIFE SCIENCES↗

Tetrahydroxystilbene glucoside modulates amyloid precursor protein processing via activation of AKT-GSK3β pathway in cells and in APP/PS1 transgenic mice

Alternative splicing of amyloid precursor protein (APP) exon 7 generates the isoforms containing a Kunitz protease inhibitor (KPI) domain. APP-KPI levels in the brain are correlated with amyloid beta (Aβ) production. Here, we determined the effect of Tetrahydroxystilbene glucoside (TSG) on the AKT-GSK3β pathway. We found GSK3β increased APP-KPI inclusion level and interacted with the splicing factor ASF. TSG was intragastrically administered to 5-month-old APP/PS1 transgenic mice for 12 months. We found that the activated the AKT-GSK3β signaling pathway suppressed APP-KPI inclusion. Moreover, TSG treatment attenuated amyloid deposition in APP/PS1 mice. This study demonstrates the neuroprotective effect of TSG on APP expression, suggesting that TSG may be beneficial for AD prevention and treatment.

60 APPLIED LIFE SCIENCES↗

Solar Flare Abundances of Potassium, Argon, and Sulphur

The absolute coronal abundances of potassium has been determined for the first time from X-ray solar flare line and continuous spectra together with absolute and relative abundances of Ar and S. Potassium is of importance in the continuing debate concerning the nature of the coronal/photospheric element abundance ratios which are widely considered to depend on first ionization potential since it has the lowest FIP of any common element in the Sun. The measurements were obtained with the RESIK crystal spectrometer on the Coronas-F spacecraft. A differential emission measure DEM = const. x exp (-(beta)T(sub e) was found to be the most consistent with the data out of three models considered. We find that the coronal ratio [K/H] = 3.7 x 10(exp - 7), a factor 3 times photospheric, in agreement with other observations using line-to-line ratios. Our measured value for the coronal ratio [Ar/H] = 1.5 x 10(exp -6) is significantly less than photospheric, indicating that there is a slight depletion of this high-FIP element in the corona. For S (an intermediate-FIP element) we obtained [S/H] = 2.2 x 10(exp - 5), approximately the same as in previous work.

Oegerle, William↗

Agulhas Current Properties Shape Microbial Community Diversity and Potential Functionality

Understanding the impact of oceanographic features on marine microbial ecosystems remains a major ecological endeavour. Here we assess microbial diversity, community structure and functional capacity along the Agulhas current system and the Subtropical convergence in the South Indian Ocean (SIO). Samples collected from the epipelagic, oxygen minimum and bathypelagic zones were analysed by 16S rRNA gene amplicon and metagenomic sequencing. In contrast to previous studies, we found high taxonomic richness in surface and deep water samples, but generally low richness for oxygen minimum zone communities. Beta-diversity analysis revealed significant dissimilarity between the three water depths. Most microbial communities were dominated by marine Gammaproteobacteria, with strikingly low levels of picocyanobacteria. Community composition was strongly influenced by specific environmental factors including depth, salinity, and the availability of both oxygen and light. Carbon, nitrogen and sulphur cycling capacity is the SIO was linked to several autotrophic and copiotrophic Alphaproteobacteria and Gammaproteobacteria. Taken together, our data suggest that the environmental conditions in the Agulhas current system, particularly depth-related parameters, substantially influence microbial community structure. While the capacity for biogeochemical cycling of nitrogen and sulphur is linked primarily by the dominant Gammaproteobacterial taxa, ecologically rare taxa drive carbon cycling.

59 BASIC BIOLOGICAL SCIENCES↗

Energy shift of Fe-K fluorescence lines due to low ionization demonstrated with XRISM in Centaurus X-3

The Fe K$\alpha$ fluorescence line at 6.4 keV is a powerful probe of cold matter surrounding X-ray sources and has been widely used in various astrophysical contexts. The X-ray microcalorimeter spectrometer onboard XRISM can measure line shifts with unprecedented precision of ${\sim }$0.2 eV, equivalent to a line-of-sight velocity of ${\sim }$10 km s$^{-1}$. At this level of accuracy, however, several factors that influence the line energy must be carefully considered prior to astrophysical interpretation. One such important factor is the ionization degree, Fe$^{q+}$. The K$\alpha$ line shifts redward by ${\sim }$4 eV as q increases from 0 (neutral) to 8 (Ar-like). Additionally, the accompanying Fe K$\beta$ line at 7.06 keV shifts blueward by ${\sim }$30 eV from $q=0$ to 8. We demonstrate that this effect is actually observable in the XRISM data of the high-mass X-ray binary Centaurus X-3 (Cen X-3). We advocate that the differential energy shift between the K$\alpha$ and K$\beta$ line provides a robust estimate of q by decoupling from other effects that shift the two lines in the same direction. We derived $q \sim 5$ (Sc-like) for the fluorescing matter by comparing the observation with atomic structure calculations of our own and in the literature. By accounting for the derived charge state and the corresponding shift in the rest-frame line energy, we made corrections for this effect and reached a consistent residual shift among the K$\alpha$, K$\beta$, and the optical measurement attributable to the systemic velocity of the system. Consequently, we obtained a new constraint on the location of the cold matter. This ionization effect needs to be assessed in all use cases of the Fe K$\alpha$ line shift beyond Cen X-3, and the proposed metric is generally applicable to all of them.

Astronomy and AstroPhysics↗

Echelle efficiencies - Theory and experiment

The effect of one echelle spectrograph design factor, orientation of the incident light bundle, is examined. Comparison of theoretical calculations and experimental measurements of echelle grating efficiencies are given for R2 echelles used in three possible configurations: alpha greater than beta, alpha smaller than beta, and the quasi-Littrow mode. The throughput-resolution products for these various cases are also compared.

Schroeder, D. J.↗

Neutronics of Advanced-Fuel Fusion Experiments with DT Triggering

Nuclear fusion studies are currently devoted to the Deuterium-Tritium (DT) fuel cycle, the easiest way to reach ignition. The recent stress on safety by the world community has stimulated the research on other fuel cycles, based on advanced reactions, such as Deuterium-Helium-3 (DHe). With DHe, it is not necessary to breed and fuel tritium. The DHe cycle has a very low presence of energetic fusion neutrons, due to DD and DT side reactions, and it has the possibility to obtain electrical power by direct energy conversion of the protons produced by the fusion reactions. DHe fusion has its own set of problems, such as the availability of {sup 3}He and the attainment of the higher plasma parameters. To explore the possibilities of DHe plasmas, a burning plasma experiment at high magnetic field and high plasma densities is particularly attractive. Ignitor is a proposed compact high-magnetic field tokamak, aimed at studying plasma-burning conditions in Deuterium-Tritium plasmas. The Ignitor experiment is designed to reach ignition under controlled DT burning conditions. The machine parameters have been established, on the basis of existing knowledge of the confinement properties of high density plasmas. The scientific goal of the Ignitor experiment is to approach, for the first time, the ignition conditions of a magnetically confined D-T plasma. However, the plasma density limit in Ignitor being well above the optimal density for DT ignition, is potentially suitable to the higher densities required for DHe burning. In fact, Ignitor has been designed also to explore conditions where 14.7-MeV protons and 3.6-MeV alpha particles produced by the DHe reactions can supply a significant amount of thermal energy to a well-confined plasma. In particular, Ignitor can sustain plasma currents exceeding those required to confine proton orbits at birth, and has more than sufficiently high densities so that the slowing-down time of both the protons and the DT alpha particles is shorter than the electron energy replacement time of the thermal plasma in which they are produced. Preliminary analyses show that a fusion power PF around 2 MW, may be reached. As a start, Ignitor can perform initial studies at the level of approximately 1 MW of power in charged particles from the DHe reaction in a mostly DT plasma. CANDOR, a design evolution of Ignitor in the direction of a reactor using a DHe fuel cycle, has been proposed; it is a feasibility study of a high-field DHe experiment of larger dimensions and higher fusion power than Ignitor, however still based on the core Ignitor technologies. The main characteristics of the CANDOR machine are the following: the major radius Ro is about double than Ignitor, plasma currents up to 25 MA with toroidal magnetic fields B{sub T} = 13 T can be produced. Unlike Ignitor, CANDOR would operate with higher values of poloidal beta around unity and the central part of the plasma column in the Second Stability region. The characteristic times over which the plasma discharge can be sustained are longer by more than a factor of 4 than those of Ignitor. To produce such a strong magnetic field in a larger machine, the toroidal field coils have been divided into two sets of coils and the central solenoid (air core transformer) is placed between them in the inboard part. In CANDOR, the DHe burning regime can be reached, by a combination of ICRF heating and alpha particle heating due to DT fusion reactions, which take the role of a sort of trigger. Thanks to this fact, and unlike other proposed DHe fusion experiments, CANDOR is capable of reaching DHe ignition using the existing technologies, and present knowledge of plasma confinement phenomena. With the initial use of DT, where tritium comprises some 50% of an initial lower density DT plasma, but is not added thereafter, the need for an intense auxiliary heating, which is one of the main technological drawbacks of DHe ignition, would be considerably alleviated, becoming feasible with the present technology. However, this method has the disadvantage of using tritium and of presenting a higher neutron flux (due to DT reactions) than 'pure' DHe plasmas, generating a neutron flux transient when passing from the initial DT trigger reaction to the final DHe burning plasma. However, for an experimental machine one-of-a-kind of relatively small dimensions, this is not an issue. (authors)

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Background reduction in the SNO+ experiment

SNO+ is a large multi-purpose liquid scintillator experiment, which first aim is to detect the neutrinoless double beta decay of {sup 130}Te. It is placed at SNOLAB, at 6000 m.w.e. and it is based on the SNO infrastructure. SNO+ will contain approximately 780 tonnes of liquid scintillator, loaded with {sup 130}Te inside an acrylic vessel (AV) with an external volume of ultra pure water to reduce the external backgrounds. Light produced in the scintillator by the interaction of particles will be detected with about 9,000 photomultiplier’s. For the neutrinoless double beta decay phase, due to its the extremely low rate expected, the control, knowledge and reduction of the background is essential. Moreover, it will also benefit other phases of the experiment focused on the study of solar neutrinos, nucleon decay, geoneutrinos and supernovae. In order to reduce the internal background level, a novel purification technique for tellurium loaded scintillators has been developed by the collaboration that reduces the U/Th concentration and several cosmic-activated isotopes by at least a factor 10{sup 2} -10{sup 3} in a single pass. In addition, different rejection techniques have been developed for the remaining internal backgrounds based on Monte-Carlo simulations. In this work, the scintillator purification technique and the levels obtained with it will be discussed. Furthermore, an overview of the different backgrounds for the double-beta phase will be presented, highlighting some of the techniques developed to reject the remained decays based on their expected timing differences.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Search for 0ν2β of {sup 100}Mo by NEMO-3 and status of SuperNEMO

The NEMO-3 experiment was devoted to the research of the neutrinoless double beta decay and the precise measurement of the two-neutrino double beta decay of seven isotopes. The detector took data in the Laboratoire Souterrain de Modane (LSM) from 2003 to 2011. The unique combination of a 3D-tracker and a calorimeter allowed to fully reconstruct the double beta decay events topology and strongly reduces the backgrounds. This feature also permitted to characterize the remaining backgrounds in independent analysis channels. With an exposure of 34.7 kg·y of {sup 100}Mo no evidence for the 0ν2β signal has been found, yielding a limit for the light Majorana neutrino mass mechanism of T{sub 1/2}(0ν2β) > 1.1 10{sup 24} years (90 % C.L.) once both statistical and systematic uncertainties are taken into account. Depending on the Nuclear Matrix Elements this corresponds to an upper limit on the Majorana effective neutrino mass of |m{sub ββ}| < 0.3 − 0.9 eV (90 % C.L.). Constraints on other lepton number violating mechanisms of 0ν2β decays are also given. Searching for high-energy double electron events in all suitable sources of the detector, no event in the energy region [3.2-10] MeV is observed for an exposure of 47 kg·y. The next generation experiment, SuperNEMO, will use the same experimental technique to extend the sensitivity on the neutrinoless double beta decay search. Several aspects have been improved compared to NEMO-3: choice of the isotope, energy resolution, energy losses… but the main challenge is the background reduction. All the detector materials have been selected for their low natural radioactivity contaminations through High Purity Germanium (HPGe) gamma spectroscopy. The double beta sources after enrichment are being prepared with extreme care and the ultimate contaminations will be characterized by the most sensitive BiPo detector. External radon tightness and internal radon emanation have been studied to ensure a very low level in the tracker with very sensitive complementary detectors: diffusion apparatus, concentration line and emanation tanks. The construction of the first detector, called the demonstrator, has started in 2012. Studying 7 kg of {sup 82}Se, the demonstrator will reach the NEMO-3 sensitivity in only 5 months and improve it by at least a factor 6 in 2.5 years. Underground installation will start fall 2014 and physics data taking should start by summer 2015.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Absence of estrogen receptor beta leads to abnormal adipogenesis during early tendon healing by an up‐regulation of PPARγ signalling

Abstract Achilles tendon injury is one of the challenges of sports medicine, the aetiology of which remains unknown. For a long time, estrogen receptor β (ERβ) has been known as a regulating factor of the metabolism in many connective tissues, such as bone, muscle and cartilage, but little is known about its role in tendon. Recent studies have implicated ERβ as involved in the process of tendon healing. Tendon‐derived stem cells (TDSCs) are getting more and more attention in tendon physiological and pathological process. In this study, we investigated how ERβ played a role in Achilles tendon healing. Achilles tendon injury model was established to analyse how ERβ affected on healing process in vivo. Cell proliferation assay, Western blots, qRT‐PCR and immunocytochemistry were performed to investigate the effect of ERβ on TDSCs. Here, we showed that ERβ deletion in mice resulted in inferior gross appearance, histological scores and, most importantly, increased accumulation of adipocytes during the early tendon healing which involved activation of peroxisome proliferator‐activated receptor γ (PPARγ) signalling. Furthermore, in vitro results of ours confirmed that the abnormity might be the result of abnormal TDSC adipogenic differentiation which could be partially reversed by the treatment of ERβ agonist LY3201. These data revealed a role of ERβ in Achilles tendon healing for the first time, thereby providing a new target for clinical treatment of Achilles tendon injury.

Bian, Xuting↗

Comparing the extraction performance of cyclodextrin-containing supramolecular deep eutectic solvents versus conventional deep eutectic solvents by headspace single drop microextraction

A headspace single drop microextraction (HS-SDME) method coupled with high performance liquid chromatography was developed to compare the extraction of eighteen aromatic organic pollutants from aqueous solutions using cyclodextrin-based supramolecular deep eutectic solvents (SUPRADESs) and alkylammonium halide-based conventional deep eutectic solvents (DESs). Different derivatives of beta-cyclodextrin (β-CD) were employed as hydrogen bond acceptors (HBA) in SUPRADESs and the extraction performance investigated. SUPRADES comprised of the 20 wt% native β-CD HBA provided the highest enrichment factors of analytes compared to SUPRADESs comprised of other derivatives of β-CD (random methylated β-cyclodextrin, heptakis(2,3,6-tri-O-methyl)-β-cyclodextrin, and 2-hydroxypropyl β-cyclodextrin). In addition, native β-CD and its derivatives were dissolved in the neat DESs and their effect on the extraction of analytes examined. Dissolution of 20 wt% native β-CD in the choline chloride ([Ch + ][Cl - ]):2Urea DES resulted in a significant increase in the extraction efficiencies of target analytes compared to the neat [Ch + ][Cl - ]:2Urea DES. Under optimum conditions, the extraction method required a solvent microdroplet of 6.5 μL, 1000 rpm stir rate, 30% (w/v) salt concentration, and a temperature of 40 °C. The tetrabutylammonium chloride: 2 lactic acid DES resulted in the highest enrichment factors while the [Ch + ][Cl - ]:2Urea DES had the lowest for most of the analytes among the evaluated solvents. The method provided limits of detection (LODs) down to 35 μg L -1 . Finally, the developed method was applied for the analysis of spiked tap and lake water, where relative recoveries ranging from 83.7% -119.7% and relative standard deviations lower than 19.2% were achieved.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Results from KamLAND-Zen

KamLAND-Zen reports on a preliminary search for neutrinoless double-beta decay with 136 Xe based on 114.8 live-days after the purification of the xenon loaded liquid scintillator. In this data, the problematic 110m Ag background peak identified in previous searches is reduced by more than a factor of 10. By combining the KamLAND-Zen pre- and post-purification data, we obtain a preliminary lower limit on the 0νββ decay half-life of T 0ν 1/2 > 2.6×10 25 yr at 90% C.L. The search sensitivity will be enhanced with additional low background data after the purification. As a result, prospects for further improvements with future KamLAND-Zen upgrades are also presented.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Occultation of a compact radio source by Venus

An occultation of the compact radio source P 0507+17 by Venus on 19 Jul. 1988, was observed in Tidbinbilla, Australia at a frequency of 2.3 GHz. The purpose of this observation was to measure the position of Venus in the radio reference frame. When data from both ingress (Venus dayside) and egress (Venus nightside) were used to solve for the position of Venus in ecliptic longitude and latitude, the results were consistent with zero offsets from the nominal values, with an uncertainty of approximately 0.2 arcsec in both coordinates. By using the nightside data alone, a value of -0.026 +/- 0.04 arcsec was obtained for the linear combination delta(lambda) + 0.51delta(beta), where delta(lambda) and delta(beta) were the offsets from their nominal values of the ecliptic longitude and latitude of Venus. Distortion of a vacuum Fresnel fringe pattern by the Venus troposphere, and especially by the Venus ionosphere, was observed. The dayside ionosphere of Venus caused very large distortions; the amplitude of the first Fresnel fringe in the ingress data was eight times larger than was expected for an airless planet. The observed fringe patterns were modeled by using plausible ionospheres (i.e., consistent with spacecraft measurements of the Venus ionosphere and with solar extreme ultraviolet flux and solar wind pressure measurements at the occultation epoch). However, the range of Venus ionospheric profiles (electron density as a function of altitude) allowed by a priori constraints and by the occultation data was large (e.g., the ionopause height on the dayside was uncertain by a factor of two). This ionospheric uncertainty (particularly on the dayside) translated into a large position uncertainty (0.2 arcsec for the dayside and 0.04 arcsec for the nightside). If it was possible to calibrate the Venus ionosphere by some external means, the accuracy in delta(lambda) and delta(beta) would have been 0.01 arcsec or better.

Linfield, R.↗

TLR4/MD-2 activation by a synthetic agonist with no similarity to LPS

Structurally disparate molecules reportedly engage and activate Toll-like receptor (TLR) 4 and other TLRs, yet the interactions that mediate binding and activation by dissimilar ligands remain unknown. We describe Neoseptins, chemically synthesized peptidomimetics that bear no structural similarity to the established TLR4 ligand, lipopolysaccharide (LPS), but productively engage the mouse TLR4 (mTLR4)/myeloid differentiation factor 2 (MD-2) complex. Neoseptin-3 activates mTLR4/MD-2 independently of CD14 and triggers canonical myeloid differentiation primary response gene 88 (MyD88)- and Toll-interleukin 1 receptor (TIR) domain-containing adaptor inducing IFN-beta (TRIF)-dependent signaling. The crystal structure mTLR4/MD-2/Neoseptin-3 at 2.57-Å resolution reveals that Neoseptin-3 binds as an asymmetrical dimer within the hydrophobic pocket of MD-2, inducing an active receptor complex similar to that induced by lipid A. Furthermore, Neoseptin-3 and lipid A form dissimilar molecular contacts to achieve receptor activation; hence strong TLR4/MD-2 agonists need not mimic LPS.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Protein Kinase R Degradation Is Essential for Rift Valley Fever Virus Infection and Is Regulated by SKP1-CUL1-F-box (SCF)FBXW11-NSs E3 Ligase

Activated protein kinase R (PKR) plays a vital role in antiviral defense primarily by inhibiting protein synthesis and augmenting interferon responses. Many viral proteins have adopted unique strategies to counteract the deleterious effects of PKR. The NSs (Non-structural s) protein which is encoded by Rift Valley fever virus (RVFV) promotes early PKR proteasomal degradation through a previously undefined mechanism. In this study, we demonstrate that NSs carries out this activity by assembling the SCF (SKP1-CUL1-F-box)FBXW11 E3 ligase. NSs binds to the F-box protein, FBXW11, via the six amino acid sequence DDGFVE called the degron sequence and recruits PKR through an alternate binding site to the SCFFBXW11 E3 ligase. We further show that disrupting the assembly of the SCFFBXW11-NSs E3 ligase with MLN4924 (a small molecule inhibitor of SCF E3 ligase activity) or NSs degron viral mutants or siRNA knockdown of FBXW11 can block PKR degradation. Surprisingly, under these conditions when PKR degradation was blocked, NSs was essential and sufficient to activate PKR causing potent inhibition of RVFV infection by suppressing viral protein synthesis. These antiviral effects were antagonized by the loss of PKR expression or with a NSs deleted mutant virus. Therefore, early PKR activation by disassembly of SCFFBXW11-NSs E3 ligase is sufficient to inhibit RVFV infection. Furthermore, FBXW11 and BTRC are the two homologues of the βTrCP (Beta-transducin repeat containing protein) gene that were previously described to be functionally redundant. However, in RVFV infection, among the two homologues of βTrCP, FBXW11 plays a dominant role in PKR degradation and is the limiting factor in the assembly of the SCFFBXW11 complex. Thus, FBXW11 serves as a master regulator of RVFV infection by promoting PKR degradation. Overall these findings provide new insights into NSs regulation of PKR activity and offer potential opportunities for therapeutic intervention of RVFV infection.

59 BASIC BIOLOGICAL SCIENCES↗

Smisc - A collection of miscellaneous functions

A collection of functions for statistical computing and data manipulation. These include routines for rapidly aggregating heterogeneous matrices, manipulating file names, loading R objects, sourcing multiple R files, formatting datetimes, multi-core parallel computing, stream editing, specialized plotting, etc. Smisc-package A collection of miscellaneous functions allMissing Identifies missing rows or columns in a data frame or matrix as.numericSilent Silent wrapper for coercing a vector to numeric comboList Produces all possible combinations of a set of linear model predictors cumMax Computes the maximum of the vector up to the current index cumsumNA Computes the cummulative sum of a vector without propogating NAs d2binom Probability functions for the sum of two independent binomials dataIn A flexible way to import data into R. dbb The Beta-Binomial Distribution df2list Row-wise conversion of a data frame to a list dfplapply Parallelized single row processing of a data frame dframeEquiv Examines the equivalence of two dataframes or matrices dkbinom Probability functions for the sum of k independent binomials factor2character Converts all factor variables in a dataframe to character variables findDepMat Identify linearly dependent rows or columns in a matrix formatDT Converts date or datetime strings into alternate formats getExtension Filename manipulations: remove the extension or path, extract the extension or path getPath Filename manipulations: remove the extension or path, extract the extension or path grabLast Filename manipulations: remove the extension or path, extract the extension or path ifelse1 Non-vectorized version of ifelse integ Simple numerical integration routine interactionPlot Two-way Interaction Plot with Error Bar linearMap Linear mapping of a numerical vector or scalar list2df Convert a list to a data frame loadObject Loads and returns the object(s) in an ".Rdata" file more Display the contents of a file to the R terminal movAvg2 Calculate the moving average using a 2-sided window openDevice Opens a graphics device based on the filename extension p2binom Probability functions for the sum of two independent binomials padZero Pad a vector of numbers with zeros parseJob Parses a collection of elements into (almost) equal sized groups pbb The Beta-Binomial Distribution pcbinom A continuous version of the binomial cdf pkbinom Probability functions for the sum of k independent binomials plapply Simple parallelization of lapply plotFun Plot one or more functions on a single plot PowerData An example of power data pvar Prints the name and value of one or more objects qbb The Beta-Binomial Distribution rbb And numerous others (space limits reporting).

Landon Sego, PNNL↗

Smisc - A collection of miscellaneous functions

A collection of functions for statistical computing and data manipulation. These include routines for rapidly aggregating heterogeneous matrices, manipulating file names, loading R objects, sourcing multiple R files, formatting datetimes, multi-core parallel computing, stream editing, specialized plotting, etc. Smisc-package A collection of miscellaneous functions allMissing Identifies missing rows or columns in a data frame or matrix as.numericSilent Silent wrapper for coercing a vector to numeric comboList Produces all possible combinations of a set of linear model predictors cumMax Computes the maximum of the vector up to the current index cumsumNA Computes the cummulative sum of a vector without propogating NAs d2binom Probability functions for the sum of two independent binomials dataIn A flexible way to import data into R. dbb The Beta-Binomial Distribution df2list Row-wise conversion of a data frame to a list dfplapply Parallelized single row processing of a data frame dframeEquiv Examines the equivalence of two dataframes or matrices dkbinom Probability functions for the sum of k independent binomials factor2character Converts all factor variables in a dataframe to character variables findDepMat Identify linearly dependent rows or columns in a matrix formatDT Converts date or datetime strings into alternate formats getExtension Filename manipulations: remove the extension or path, extract the extension or path getPath Filename manipulations: remove the extension or path, extract the extension or path grabLast Filename manipulations: remove the extension or path, extract the extension or path ifelse1 Non-vectorized version of ifelse integ Simple numerical integration routine interactionPlot Two-way Interaction Plot with Error Bar linearMap Linear mapping of a numerical vector or scalar list2df Convert a list to a data frame loadObject Loads and returns the object(s) in an ".Rdata" file more Display the contents of a file to the R terminal movAvg2 Calculate the moving average using a 2-sided window openDevice Opens a graphics device based on the filename extension p2binom Probability functions for the sum of two independent binomials padZero Pad a vector of numbers with zeros parseJob Parses a collection of elements into (almost) equal sized groups pbb The Beta-Binomial Distribution pcbinom A continuous version of the binomial cdf pkbinom Probability functions for the sum of k independent binomials plapply Simple parallelization of lapply plotFun Plot one or more functions on a single plot PowerData An example of power data pvar Prints the name and value of one or more objects qbb The Beta-Binomial Distribution rbb And numerous others (space limits reporting).

Landon Sego, PNNL↗