Issues of Processing and Multiple Testing of SELDI-TOF MS Proteomic Data

A new data filtering method for SELDI-TOF MS proteomic spectra data is described. We examined technical repeats (2 per subject) of intensity versus m/z (mass/charge) of bone marrow cell lysate for two groups of childhood leukemia patients: acute myeloid leukemia (AML) and acute lymphoblastic leukemia (ALL). As others have noted, the type of data processing as well as experimental variability can have a disproportionate impact on the list of interesting proteins (see Baggerly et al. (2004)). We propose a list of processing and multiple testing techniques to correct for 1) background drift; 2) filtering using smooth regression and cross-validated bandwidth selection; 3) peak finding; and 4) methods to correct for multiple testing (van der Laan et al. (2005)). The result is a list of proteins (indexed by m/z) where average expression is significantly different among disease (or treatment, etc.) groups. The procedures are intended to provide a sensible and statistically driven algorithm, which we argue provides a list of proteins that have a significant difference in expression. Given no sources of unmeasured bias (such as confounding of experimental conditions with disease status), proteins found to be statistically significant using this technique have a low probability of being false positives

Faraday rotation of the supernova remnant G296.5+10.0: Evidence for a Magnetized Progenitor Wind

We present spectropolarimetric radio images of the supernova remnant (SNR) G296.5+10.0 at frequencies near 1.4 GHz, observed with the Australia Telescope Compact Array. By applying rotation measure (RM) synthesis to the data, a pixel-by-pixel map of Faraday rotation has been produced for the entire remnant. We find G296.5+10.0 to have a highly ordered RM structure, with mainly positive RMs (mean RM of +28 rad/m**2) on the eastern side and negative RMs (mean RM of -14 rad/m**2) on the western side, indicating a magnetic field which is directed away from us on one side and toward us on the other. We consider several possible mechanisms for creating the observed RM pattern. Neither Faraday rotation in foreground interstellar gas nor in a homogeneous ambient medium swept up by the SNR shell can easily explain the magnitude and sign of the observed RM pattern. Instead, we propose that the observed RMs are the imprint of an azimuthal magnetic field in the stellar wind of the progenitor star. Specifically, we calculate that a swept-up magnetized wind from a red supergiant can produce RMs of the observed magnitude, while the azimuthal pattern of the magnetic field at large distances from the star naturally produces the anti-symmetric RM pattern observed. Expansion into such a wind can possibly also account for the striking bilateral symmetry of the SNR's radio and X-ray morphologies.Comment: Accepted for publication in The Astrophysical Journa

Heating and cooling of the neutral ISM in the NGC4736 circumnuclear ring

The manner in which gas accretes and orbits within circumnuclear rings has direct implications for the star formation process. In particular, gas may be compressed and shocked at the inflow points, resulting in bursts of star formation at these locations. Afterwards the gas and young stars move together through the ring. In addition, star formation may occur throughout the ring, if and when the gas reaches sufficient density to collapse under gravity. These two scenarios for star formation in rings are often referred to as the `pearls on a string' and `popcorn' paradigms. In this paper, we use new Herschel PACS observations, obtained as part of the KINGFISH Open Time Key Program, along with archival Spitzer and ground-based observations from the SINGS Legacy project, to investigate the heating and cooling of the interstellar medium in the nearby star-forming ring galaxy, NGC4736. By comparing spatially resolved estimates of the stellar FUV flux available for heating, with the gas and dust cooling derived from the FIR continuum and line emission, we show that while star formation is indeed dominant at the inflow points in NGC 4736, additional star formation is needed to balance the gas heating and cooling throughout the ring. This additional component most likely arises from the general increase in gas density in the ring over its lifetime. Our data provide strong evidence, therefore, for a combination of the two paradigms for star formation in the ring in NGC4736.Comment: accepted for publication in A&

Observation of magnetic circular dichroism in Fe L_{2,3} x-ray-fluorescence spectra

We report experiments demonstrating circular dichroism in the x-ray-fluorescence spectra of magnetic systems, as predicted by a recent theory. The data, on the L_{2,3} edges of ferromagnetic iron, are compared with fully relativistic local spin density functional calculations, and the relationship between the dichroic spectra and the spin-resolved local density of occupied states is discussed

Growth and magnetic characterization of Co nanoparticles obtained by femtosecond pulsed laser deposition

We present a detailed study on the morphology and magnetic properties of Co nanostructures deposited onto oxidized Si substrates by femtosecond pulsed laser deposition. Generally, Co disks of nanometric dimensions are obtained just above the ablation threshold, with a size distribution characterized by an increasingly larger number of disks as their size diminishes, and with a maximum disk size that depends on the laser power density. In Au/Co/Au structures, in-plane magnetic anisotropy is observed in all cases, with no indication of superparamagnetism regardless of the amount of material or the laser power density. Magnetic force microscopy observations show coexistence of single-domain and vortex states for the magnetic domain structure of the disks. Superconducting quantum interference device magnetometry and x-ray magnetic circular dichroism measurements point to saturation magnetization values lower than the bulk, probably due to partial oxidation of the Co resulting from incomplete coverage by the Au capping layer.Work was supported in part by the U.S. Department of Energy, Basic Energy Sciences (Grant No. DE-FG02-06ER46273), NSF FOCUS Center, the Spanish Ministerio de Educación y Ciencia (References No. PR2005-0017 and No.MAT2005-05524-C02), Comunidad de Madrid (Reference No. S-0505/MAT/0194 NANOMAGNET), and CSIC (Reference No. 200650I130). Support from the SRS staff during the XMCD experiments is greatly acknowledged. Y.H. and L.M. also acknowledge financial support from the “Ramón y Cajal” and “Juan de la Cierva” programs, respectively, from the Spanish Ministerio de Investigación y Ciencia and Consejo Superior de Investigaciones Científicas (CSIC).Peer reviewe

Strategic foresight: towards enhancing leadership capabilities and business sustainability

СЕКЦИЯ 9. АКТУАЛЬНЫЕ ФИНАНСОВЫЕ И ЭКОНОМИЧЕСКИЕ АСПЕКТЫ РАЗВИТИЯ ОТРАСЛЕ

Measurement of the proton electric to magnetic form factor ratio from \vec ^1H(\vec e, e'p)

We report the first precision measurement of the proton electric to magnetic form factor ratio from spin-dependent elastic scattering of longitudinally polarized electrons from a polarized hydrogen internal gas target. The measurement was performed at the MIT-Bates South Hall Ring over a range of four-momentum transfer squared $Q^2$ from 0.15 to 0.65 (GeV/c)$^2$. Significantly improved results on the proton electric and magnetic form factors are obtained in combination with previous cross-section data on elastic electron-proton scattering in the same $Q^2$ region.Comment: 4 pages, 2 figures, submitted to PR

Convergence Acceleration via Combined Nonlinear-Condensation Transformations

A method of numerically evaluating slowly convergent monotone series is described. First, we apply a condensation transformation due to Van Wijngaarden to the original series. This transforms the original monotone series into an alternating series. In the second step, the convergence of the transformed series is accelerated with the help of suitable nonlinear sequence transformations that are known to be particularly powerful for alternating series. Some theoretical aspects of our approach are discussed. The efficiency, numerical stability, and wide applicability of the combined nonlinear-condensation transformation is illustrated by a number of examples. We discuss the evaluation of special functions close to or on the boundary of the circle of convergence, even in the vicinity of singularities. We also consider a series of products of spherical Bessel functions, which serves as a model for partial wave expansions occurring in quantum electrodynamic bound state calculations.Comment: 24 pages, LaTeX, 12 tables (accepted for publication in Comput. Phys. Comm.

Resonant Auger spectroscopy at the L2,3 shake-up thresholds as a probe of electron correlation effects in nickel

The excitation energy dependence of the three-hole satellites in the L3-M4,5M4,5 and L2-M4,5M4,5 Auger spectra of nickel metal has been measured using synchrotron radiation. The satellite behavior in the non-radiative emission spectra at the L3 and L2 thresholds is compared and the influence of the Coster-Kronig channel explored. The three-hole satellite intensity at the L3 Auger emission line reveals a peak structure at 5 eV above the L3 threshold attributed to resonant processes at the 2p53d9 shake-up threshold. This is discussed in connection with the 6-eV feature in the x-ray absorption spectrum.Comment: 8 pages, 4 figures; http://prb.aps.org/abstract/PRB/v58/i7/p3677_