Search

DNA microarrays is a technology that can be used to diagnose cancer and other diseases. To automate the analysis of such data, pattern recognition and machine learning algorithms can be applied. However, the curse of dimensionality is unavoidable: very few samples to train, and many attributes in each sample. As the predictive accuracy of supervised classifiers decays with irrelevant and redundant features, the necessity of a dimensionality reduction process is essential. The main idea is to retain only the genes that are the most influential in the classification of the disease. In this paper, a new methodology based on Principal Component Analysis and Logistics Regression is proposed. Our method enables the selection of particular genes that are relevant for classification. Experiments were run using eight different classifiers on two benchmark datasets: Leukemia and Lymphoma. The results show that our method not only reduces the number of required attributes, but also increase the classification accuracy in more than 10% in all the cases we tested.

We present the current status of the White Dwarf Photosphere Experiment at the Z Pulsed Power Facility at Sandia National Laboratories. This experiment has evolved into a unique platform for simultaneously measuring emission, absorption, and back-lighter continua spectra of plasmas with white dwarf (WD) photospheric compositions and conditions (Te∼1 eV, ne∼1016–1018e/cm3); our current experiments involve line profile measurements of hydrogen—corresponding to the most common surface composition in white dwarf stars, with future experiments planned for helium, carbon, and oxygen. These profiles will test line broadening theories used in white dwarf model atmospheres to infer the fundamental parameters (e.g., effective temperature and mass) of thousands of WDs. This experiment uses the large amount of x-rays generated from a z-pinch dynamic hohlraum to radiatively drive plasma formation in a gas cell. We reach significantly higher densities than the landmark study of Wiese et al. (1972), thereby putting competing line broadening theories to the test in a regime where their predictions strongly diverge. The simultaneous measurement of emission, absorption, and back-lighter continua in macroscopic plasmas represents a significant advance relative to hydrogen line profile experiments of the past.

We present an experimental platform for measuring hydrogen Balmer emission and absorption line profiles for plasmas with white dwarf (WD) photospheric conditions (T_e ~ 1 eV, n_e ~ 10^17 cm^-3). These profiles will be used to benchmark WD atmosphere models, which, used with the spectroscopic method, are responsible for determining fundamental parameters (e.g., effective temperature, mass) for tens of thousands of WDs. Our experiment, performed at the Z Pulsed Power Facility at Sandia National Laboratories, uses the large amount of x-rays generated from a z-pinch dynamic hohlraum to drive plasma formation in a gas cell. The platform is unique compared to past hydrogen line profile experiments in that the plasma is radiation-driven. This decouples the heating source from the plasma to be studied in the sense that the radiation temperature causing the photoionization is independent of the initial conditions of the gas. For the first time we measure hydrogen Balmer lines in absorption at these conditions in the laboratory for the purpose of benchmarking Stark-broadened line shapes. The platform can be used to study other plasma species and to explore non-LTE, time-dependent collisional-radiative atomic kinetics., Comment: Accepted to High Energy Density Physics, 10 pages (double-column), 9 figures

We present a comprehensive survey of CII* absorption detections toward stars within 100 pc in order to measure the distribution of electron densities present in the local interstellar medium (LISM). Using high spectral resolution observations of nearby stars obtained by GHRS and STIS onboard the Hubble Space Telescope, we identify 13 sight lines with 23 individual CII* absorption components, which provide electron density measurements, the vast majority of which are new. We employ several strategies to determine more accurate CII column densities from the saturated CII resonance line, including, constraints of the line width from the optically thin CII* line, constraints from independent temperature measurements of the LISM gas based on line widths of other ions, and third, using measured SII column densities as a proxy for CII column densities. The sample of electron densities appears consistent with a log-normal distribution and an unweighted mean value of n_e(CII_SII) = 0.11^+0.10_-0.05 cm^-3. Seven individual sight lines probe the Local Interstellar Cloud (LIC), and all present a similar value for the electron density, with a weighted mean of n_e(LIC) = 0.12 +/- 0.04 cm^-3. The Hyades Cloud, a decelerated cloud at the leading edge of the platoon of LISM clouds, has a significantly higher electron density than the LIC. Observed toward G191-B2B, the high electron density may be caused by the lack of shielding from such a strong radiation source. Given some simple assumptions, the range of observed electron densities translates into a range of thermal pressures, P/k = 3300^+5500_-1900 K cm^-3. This work greatly expands the number of electron density measurements and provides important constraints on the ionization, abundance, and evolutionary models of the local interstellar medium. (abridged)

We spectroscopically measure multiple hydrogen Balmer line profiles from laboratory plasmas to investigate the theoretical line profiles used in white dwarf atmosphere models. X-ray radiation produced at the Z Pulsed Power Facility at Sandia National Laboratories initiates plasma formation in a hydrogen-filled gas cell, replicating white dwarf photospheric conditions. Here we present time-resolved measurements of H$\beta$ and fit this line using different theoretical line profiles to diagnose electron density, $n_{\rm e}$, and $n=2$ level population, $n_2$. Aided by synthetic tests, we characterize the validity of our diagnostic method for this experimental platform. During a single experiment, we infer a continuous range of electron densities increasing from $n_{\rm e}\sim4$ to $\sim30\times10^{16}\,$cm$^{-3}$ throughout a 120-ns evolution of our plasma. Also, we observe $n_2$ to be initially elevated with respect to local thermodynamic equilibrium (LTE); it then equilibrates within $\sim55\,$ns to become consistent with LTE. This supports our electron-temperature determination of $T_{\rm e}\sim1.3\,$eV ($\sim15,000\,$K) after this time. At $n_{\rm e}\gtrsim10^{17}\,$cm$^{-3}$, we find that computer-simulation-based line-profile calculations provide better fits (lower reduced $\chi^2$) than the line profiles currently used in the white dwarf astronomy community. The inferred conditions, however, are in good quantitative agreement. This work establishes an experimental foundation for the future investigation of relative shapes and strengths between different hydrogen Balmer lines., Comment: 11 double-column pages, 15 figures, Accepted for publication in ApJ

Barriers to retention in HIV care are detrimental to patients' progress along the HIV continuum of care. Previous literature has focused on individual, client-level barriers, and interventions to address them. In contrast, less work has examined the role of system-level barriers on HIV care outcomes. This study seeks to understand how individual and systemic barriers individually are associated with clinic appointment attendance and virologic suppression in HIV-infected patients attending the largest HIV clinic in Miami-Dade, FL. In addition, we examined the synergistic effects of these barriers as potential syndemic factors on these health outcomes. Barriers to clinic attendance were determined in a face-to-face study interview with 444 HIV-infected outpatients (187 regular attenders, 191 irregular attenders, and 66 nonattenders) identified from electronic medical records. Compared with the other attendance groups, nonattenders had higher viral loads, were less likely to be virologically suppressed, had lower CD4 counts, had higher depressive symptoms, life chaos, lower quality of life, and higher rates of food insecurity, and recent drug use. Additionally, nonattenders compared with regular attenders had lower physician relationship ratings, had lower medical information clarity and more often reported transportation as a barrier to clinic attendance. When viewed as a syndemic, compared with patients not reporting any barriers, patients with 3 or more individual-level barriers were more likely to have a detectable viral load (odds ratio = 3.60, 95% CI: 1.71 to 7.61). Our findings suggest that patients presenting to the clinic with multiple barriers should be prioritized for assistance and future interventions to improve retention in care. Interventions should address multiple individual and system-level barriers simultaneously with particular attention to addressing depressive symptoms, organizational skills, relationship with the physician, and HIV-related health education.

Numerous high-resolution spectra of the δ Scuti star 4 CVn were gathered at McDonald Observatory in Texas, USA. They were prepared for interpretation using standard IRAF routines for a subsequent frequency analysis and mode identification with the software FAMIAS. After the reduction process a clear trend in the first moment of the line profile (radial velocity) remained, indicating the signature of binary motion. This was corrected for by fitting a Keplerian orbit, followed by a detailed analysis of the data in the reference frame of the primary. The results of the frequency analysis are in good agreement with previous photometric studies. This paper presents thirteen pulsation modes that were detected in the data sets for the years 2010 and/or 2011. Future work involves spectroscopic mode identification and subsequent seismic modeling (© 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim)

Experimental tests are in progress to evaluate the accuracy of the modeled iron opacity at solar interior conditions [J.E. Bailey et al., Phys. Plasmas 16, 058101 (2009)]. The iron sample is placed on top of the Sandia National Laboratories z-pinch dynamic hohlraum (ZPDH) radiation source. The samples are heated to 150 - 200 eV electron temperatures and 7e21 - 4e22 e/cc electron densities by the ZPDH radiation and backlit at its stagnation [T. Nagayama et al., Phys. Plasmas 21, 056502 (2014)]. The backlighter attenuated by the heated sample plasma is measured by four spectrometers along +/- 9 degree with respect to the z-pinch axis to infer the sample iron opacity. Here we describe measurements of the source-to-sample distance that exploit the parallax of spectrometers that view the half-moon-shaped sample from +/-9 degree. The measured sample temperature decreases with increased source-to-sample distance. This distance must be taken into account for understanding the sample heating., Comment: Published online 17 July 2014 (http://scitation.aip.org/content/aip/journal/rsi/85/11/10.1063/1.4889776)

We carry out high-speed photometry on 20 of the shortest-period, detached white dwarf binaries known and discover systems with eclipses, ellipsoidal variations (due to tidal deformations of the visible white dwarf), and Doppler beaming. All of the binaries contain low-mass white dwarfs with orbital periods less than 4 hr. Our observations identify the first eight tidally distorted white dwarfs, four of which are reported for the first time here, which we use to put empirical constraints on the mass-radius relationship for extremely low-mass (, 14 pages, 5 figures, accepted for publication in The Astrophysical Journal

Hubble Space Telescope spectra obtained in 2010 and 2011, three and four years after the large amplitude dwarf nova outburst of V455 And, were combined with optical photometry and spectra to study the cooling of the white dwarf, its spin, and possible pulsation periods after the outburst. The modeling of the ultraviolet (UV) spectra show that the white dwarf temperature remains ~600 K hotter than its quiescent value at three years post outburst, and still a few hundred degrees hotter at four years post outburst. The white dwarf spin at 67.6 s and its second harmonic at 33.8 s are visible in the optical within a month of outburst and are obvious in the later UV observations in the shortest wavelength continuum and the UV emission lines, indicating an origin in high temperature regions near the accretion curtains. The UV light curves folded on the spin period show a double-humped modulation consistent with two-pole accretion. The optical photometry two years after outburst shows a group of frequencies present at shorter periods (250-263 s) than the periods ascribed to pulsation at quiescence, and these gradually shift toward the quiescent frequencies (300-360 s) as time progresses past outburst. The most surprising result is that the frequencies near this period in the UV data are only prominent in the emission lines, not the UV continuum, implying an origin away from the white dwarf photosphere. Thus, the connection of this group of periods with non-radial pulsations of the white dwarf remains elusive., 18 pages, 14 figs; accepted for ApJ

We present the discovery of photometric variability in the DQ white dwarf SDSS J103655.39+652252.2 (SDSS J1036+6522). Time-series photometry reveals a coherent monoperiodic modulation at a period of 1115.64751(67) s with an amplitude of 0.442% +/- 0.024%; no other periodic modulations are observed with amplitudes >~0.13%. The period, amplitude, and phase of this modulation are constant within errors over 16 months. The spectrum of SDSS J1036+6522 shows magnetic splitting of carbon lines, and we use Paschen-Back formalism to develop a grid of model atmospheres for mixed carbon and helium atmospheres. Our models, while reliant on several simplistic assumptions, nevertheless match the major spectral and photometric properties of the star with a self-consistent set of parameters: Teff~15,500 K, log g ~9, log(C/He)=-1.0, and a mean magnetic field strength of 3.0 +/- 0.2 MG. The temperature and abundances strongly suggest that SDSS J1036+6522 is a transition object between the hot, carbon-dominated DQs and the cool, He-dominated DQs. The variability of SDSS J1036+6522 has characteristics similar to those of the variable hot carbon-atmosphere white dwarfs (DQVs), however, its temperature is significantly cooler. The pulse profile of SDSS J1036+6522 is nearly sinusoidal, in contrast with the significantly asymmetric pulse shapes of the known magnetic DQVs. If the variability in SDSS J1036+6522 is due to the same mechanism as other DQVs, then the pulse shape is not a definitive diagnostic on the absence of a strong magnetic field in DQVs. It remains unclear whether the root cause of the variability in SDSS J1036+6522 and the other hot DQVs is the same., Accepted for publication in ApJ. 12 pages, 9 figures

One of the most intriguing questions confronting the bone morphogenetic protein family is the mechanism of ligand recognition, because there are more ligands than receptors. Crystal structures of two type II receptors, ActR-II and BMPR-II, are essentially identical, and a loop structure (A-loop) has been suggested to play a role in determining ligand specificity. A solution biophysical study showed mutations of several A-loop residues in these two receptors exert different ligand binding effects. Thus, the issues of mechanism of ligand recognition and specificity remain unresolved. We examined effects of mutations of residues Y40, G47, and S107 in BMPR-II. These residues are not identified as being in contact with the ligand in the BMP-7-BMPR-II complex but are found mutated in genetic diseases. They are likely to be useful in identifying their roles in differentiating the various BMP ligands. Spectroscopic probing revealed little mutation-induced structural change in BMPR-II. Ligand binding studies revealed that Y40 plays a significant role in differentiating three distinct ligands; G47 and S107 affect ligand binding to a lesser extent. The role of the A-loop in ActR-II or BMPR-II is dependent on the host sequence of the receptor extracellular domain (ECD) in which it is embedded, suggesting a host-guest relationship between the A-loop and the rest of the ECD. Computational analysis demonstrated a long-range connectivity between Y40, G47, and S107 and other locations in BMPR-II. An integration of these results on functional energetics and protein structures clearly demonstrates, for the first time, an intradomain communication network within BMPR-II.

We measure apparent velocities (v_app) of absorption lines for 36 white dwarfs (WDs) with helium-dominated atmospheres -- 16 DBAs and 20 DBs -- using optical spectra taken for the European Southern Observatory SN Ia progenitor survey (SPY). We find a difference of 6.9+/-6.9 km/s in the average apparent velocity of the H-alpha lines versus that of the HeI 5876AA for our DBAs. This is a measure of the blueshift of this He line due to pressure effects. By using this as a correction, we extend the gravitational redshift method employed by Falcon et al. (2010) to use the apparent velocity of the HeI 5876AA line and conduct the first gravitational redshift investigation of a group of WDs without visible hydrogen lines. We use biweight estimators to find an average apparent velocity, _BI, (and hence average gravitational redshift, _BI) for our WDs; from that we derive an average mass, _BI. For the DBAs, we find _BI = 40.8+/-4.7 km/s and derive _BI = 0.71 +0.04 -0.05 Msun. Though different from of DAs (32.57 km/s) at the 91% confidence level and suggestive of a larger DBA mean mass than that for normal DAs derived using the same method (0.647 +0.013 -0.014 Msun; Falcon et al. 2010), we do not claim this as a stringent detection. Rather, we emphasize that the difference between _BI of the DBAs and of normal DAs is no larger than 9.2 km/s, at the 95% confidence level; this corresponds to roughly 0.10 Msun. For the DBs, we find ^He_BI = 42.9+/-8.49 km/s after applying the blueshift correction and determine _BI = 0.74 +0.08 -0.09 Msun. The difference between ^He_BI of the DBs and of DAs is less than or equal to 11.5 km/s (~0.12 Msun), at the 95% confidence level. The gravitational redshift method indicates much larger mean masses than the spectroscopic determinations of the same sample by Voss et al. (2007)..., Comment: Accepted to the Astrophysical Journal, 10 pages double-column, 3 figures, 5 tables

We measure apparent velocities (v_app) of the Halpha and Hbeta Balmer line cores for 449 non-binary thin disk normal DA white dwarfs (WDs) using optical spectra taken for the ESO SN Ia Progenitor surveY (SPY; Napiwotzki et al. 2001). Assuming these WDs are nearby and co-moving, we correct our velocities to the Local Standard of Rest so that the remaining stellar motions are random. By averaging over the sample, we are left with the mean gravitational redshift, : we find = = 32.57 +/- 1.17 km/s. Using the mass-radius relation from evolutionary models, this translates to a mean mass of 0.647 +0.013 -0.014 Msun. We interpret this as the mean mass for all DAs. Our results are in agreement with previous gravitational redshift studies but are significantly higher than all previous spectroscopic determinations except the recent findings of Tremblay & Bergeron (2009). Since the gravitational redshift method is independent of surface gravity from atmosphere models, we investigate the mean mass of DAs with spectroscopic Teff both above and below 12000 K; fits to line profiles give a rapid increase in the mean mass with decreasing Teff. Our results are consistent with no significant change in mean mass: ^hot = 0.640 +/- 0.014 Msun and ^cool = 0.686 +0.035 -0.039 Msun., Comment: Accepted for publication in ApJ, 14 pages, 12 figures

We present a preliminary report from the laboratory astrophysics experiments to create macroscopic (∼19 cm3) hydrogen‐plasmas with white dwarf (WD) photospheric conditions (i.e., temperature, electron density). These experiments, performed at the Z Pulsed Power Facility at Sandia National Laboratories, will serve as benchmarks for fundamental atomic line profile measurements in emission and absorption; they are targeted to address the discrepancy between theory and observation of WD photospheres—cooler photospheres in particular.

We measure apparent velocities (νapp) of the Hα and Hβ Balmer line cores for 16 helium‐dominated white dwarfs (WDs) using optical spectra taken for the European Southern Observatory SN Ia progenitor survey (SPY). Following the gravitational redshift method employed by Falcon et al. [1], we find a mean apparent velocity of 〈νapp〉 = 39.58±4.41 km s−1 and use it to derive a mean mass of 〈M〉 = 0.701−0.046+0.042M⊙. Though the sample is small, the mean mass appears to be larger than the mean mass of DAs derived using the same method [0.647−0.014+0.013M⊙,1].

We present a comprehensive survey of CII* absorption detections toward stars within 100 pc in order to measure the distribution of electron densities present in the local interstellar medium (LISM). Using high spectral resolution observations of nearby stars obtained by GHRS and STIS onboard the Hubble Space Telescope, we identify 13 sight lines with 23 individual CII* absorption components, which provide electron density measurements, the vast majority of which are new. We employ several strategies to determine more accurate CII column densities from the saturated CII resonance line, including, constraints of the line width from the optically thin CII* line, constraints from independent temperature measurements of the LISM gas based on line widths of other ions, and third, using measured SII column densities as a proxy for CII column densities. The sample of electron densities appears consistent with a log-normal distribution and an unweighted mean value of n_e(CII_SII) = 0.11^+0.10_-0.05 cm^-3. Seven individual sight lines probe the Local Interstellar Cloud (LIC), and all present a similar value for the electron density, with a weighted mean of n_e(LIC) = 0.12 +/- 0.04 cm^-3. The Hyades Cloud, a decelerated cloud at the leading edge of the platoon of LISM clouds, has a significantly higher electron density than the LIC. Observed toward G191-B2B, the high electron density may be caused by the lack of shielding from such a strong radiation source. Given some simple assumptions, the range of observed electron densities translates into a range of thermal pressures, P/k = 3300^+5500_-1900 K cm^-3. This work greatly expands the number of electron density measurements and provides important constraints on the ionization, abundance, and evolutionary models of the local interstellar medium. (abridged), Comment: 41 pages, 9 figures; Accepted for publication in ApJ

The Z Facility at Sandia National Laboratories [Matzen et al., Phys. Plasmas 12, 055503 (2005)] provides MJ-class x-ray sources that can emit powers >0.3 PW. This capability enables benchmark experiments of fundamental material properties in radiation-heated matter at conditions previously unattainable in the laboratory. Experiments on Z can produce uniform, long-lived, and large plasmas with volumes up to 20 cc, temperatures from 1–200 eV, and electron densities from 1017–23 cc−1. These unique characteristics and the ability to radiatively heat multiple experiments in a single shot have led to a new effort called the Z Astrophysical Plasma Properties (ZAPP) collaboration. The focus of the ZAPP collaboration is to reproduce the radiation and material characteristics of astrophysical plasmas as closely as possible in the laboratory and use detailed spectral measurements to strengthen models for atoms in plasmas. Specific issues under investigation include the LTE opacity of iron at stellar-interior conditi...

We have finally measured the evolutionary rate of cooling of the pulsating hydrogen atmosphere (DA) white dwarf ZZ Ceti (Ross 548), as reflected by the drift rate of the 213.13260694 s period. Using 41 yr of time-series photometry from 1970 November to 2012 January, we determine the rate of change of this period with time to be dP/dt = (5.2 ± 1.4) × 10-15 s s-1 employing the O-C method and (5.45 ± 0.79) × 10-15 s s-1 using a direct nonlinear least squares fit to the entire lightcurve. We adopt the dP/dt obtained from the nonlinear least squares program as our final determination, but augment the corresponding uncertainty to a more realistic value, ultimately arriving at the measurement of dP/dt = (5.5 ± 1.0) × 10-15 s s-1. After correcting for proper motion, the evolutionary rate of cooling of ZZ Ceti is computed to be (3.3 ± 1.1) × 10-15 s s-1. This value is consistent within uncertainties with the measurement of (4.19 ± 0.73) × 10-15 s s-1 for another similar pulsating DA white dwarf, G 117-B15A. Measuring the cooling rate of ZZ Ceti helps us refine our stellar structure and evolutionary models, as cooling depends mainly on the core composition and stellar mass. Calibrating white dwarf cooling curves with this measurement will reduce the theoretical uncertainties involved in white dwarf cosmochronometry. Should the 213.13 s period be trapped in the hydrogen envelope, then our determination of its drift rate compared to the expected evolutionary rate suggests an additional source of stellar cooling. Attributing the excess cooling to the emission of axions imposes a constraint on the mass of the hypothetical axion particle., La lista completa de autores que integran el documento puede consultarse en el archivo., Facultad de Ciencias Astronómicas y Geofísicas

Hot white dwarfs with carbon-dominated atmospheres (hot DQs) are a cryptic class of white dwarfs. In addition to their deficiency of hydrogen and helium, most of these stars are highly magnetic, and a large fraction vary in luminosity. This variability has been ascribed to nonradial pulsations, but increasing data call this explanation into question. We present studies of short-term variability in seven hot DQ white dwarfs. Three (SDSS J1426+5752, SDSS J2200-0741, and SDSS J2348-0942) were known to be variable. Their photometric modulations are coherent over at least two years, and we find no evidence for variability at frequencies that are not harmonics. We present the first time-series photometry for three additional hot DQs (SDSS J0236-0734, SDSS J1402+3818, and SDSS J1615+4543); none are observed to vary, but the signal-to-noise is low. Finally, we present high speed photometry for SDSS J0005-1002, known to exhibit a 2.1 d photometric variation; we do not observe any short-term variability. Monoperiodicity is rare among pulsating white dwarfs, so we contemplate whether the photometric variability is due to rotation rather than pulsations; similar hypotheses have been raised by other researchers. If the variability is due to rotation, then hot DQ white dwarfs as a class contain many rapid rotators. Given the lack of companions to these stars, the origin of any fast rotation is unclear -- both massive progenitor stars and double degenerate merger remnants are possibilities. We end with suggestions on future work that would best clarify the nature of these rare, intriguing objects., Comment: 9 pages, 7 figures; accepted for publication in the Astrophysical Journal

Gas injection at the bottom of an immersed granular layer made of particles slightly heavier than the surrounding fluid leads, in the stationary regime, to the formation of a dense suspension resulting from the competition between particle entrainment by bubbles and sedimentation. The statistical study of bubbles characteristics shows that above a critical gas flow-rate, the bubble population splits in two, with small bubbles appearing in the suspension. The bubble main orientation axis displays two bifurcations, with a coexistence zone. Contrary to the intuition, the horizontal extent of the region explored by bubbles depends not on the flow-rate, but only on the effective gravity., L'injection de gaz à la base d'un lit granulaire immergé formé de particules légèrement plus lourdes que le liquide environnant conduit à la formation, en régime stationnaire, d'une suspension dense résultant d'une compétition entre l'entraînement des particules par les bulles et leur sédimentation. L'étude statistique des propriétés des bulles dans ce régime montre qu'au-delà d'un débit critique d'injection de gaz, la population de bulles se scinde en deux avec l'apparition de petites bulles dans la suspension. L'orientation de l'axe principal des bulles montre deux bifurcations, avec une zone de coexistence. De manière non-intuitive, l'extension horizontale de la région explorée par les bulles ne dépend pas du débit, mais uniquement de la gravité effective.