Galaxy-Quasar correlations between APM galaxies and Hamburg-ESO QSOs

We detect angular galaxy-QSO cross-correlations between the APM Galaxy Catalogue and a preliminary release (consisting of roughly half of the anticipated final catalogue) of the Hamburg-ESO Catalogue of Bright QSOs as a function of source QSO redshift using multiple cross-correlation estimators. Each of the estimators yield very similar results, implying that the APM catalogue and the Hamburg-ESO survey are both fair samples of the respective true galaxy and QSO populations. Though the signal matches the expectations of gravitational lensing qualitatively, the strength of the measured cross-correlation signal is significantly greater than the CDM models of lensing by large scale structure would suggest. This same disagreement between models and observation has been found in several earlier studies. We estimate our confidence in the correlation detections versus redshift by generating 1000 random realizations of the Hamburg-ESO QSO survey: We detect physical associations between galaxies and low-redshift QSOs at 99% confidence and detect lensing associations at roughly 95% confidence for QSOs with redshifts between 0.6 and 1. Control cross-correlations between Galactic stars and QSOs show no signal. Finally, the overdensities (underdensities) of galaxies near QSO positions relative to those lying roughly 135 - 150 arcmin away are uncorrelated with differences in Galactic extinction between the two regions, implying that Galactic dust is not significantly affecting the QSO sample.Comment: 35 pages total, including 9 figures. Accepted by the Astrophysical Journa

Large-Scale QSO-Galaxy Correlations and Weak Lensing

Several recent studies show that bright, intermediate and high redshift optically and radio selected QSOs are positively correlated with nearby galaxies on a range of angular scales up to a degree. Obscuration by unevenly distributed Galactic dust can be ruled out as the cause, leaving weak statistical lensing as the physical process responsible. However the amplitude of correlations on < 1 degree scales is at least a factor of a few larger than lensing model predictions. A possible way to reconcile the observations and theory is to revise the weak lensing formalism. We extend the standard lensing formulation to include the next higher order term (second order) in the geodesic equation of motion for photons. We derive relevant equations applicable in the weak lensing regime, and discuss qualitative properties of the updated formulation. We then perform numerical integrations of the revised equation and study the effect of the extra term using two different types of cosmic mass density fluctuations. We find that nearby large-scale coherent structures increase the amplitude of the predicted lensing-induced correlations between QSOs and foreground galaxies by ~ 10% (not a factor of several required by observations), while the redshift of the optimal, i.e. `most correlated' structures is moved closer to the observer compared to what is predicted using the standard lensing equation.Comment: extended Section 2; 20 pages, including 4 figures, accepted to Ap

Gravitational Lensing as Signal and Noise in Lyman-alpha Forest Measurements

In Lyman-alpha forest measurements it is generally assumed that quasars are mere background light sources which are uncorrelated with the forest. Gravitational lensing of the quasars violates this assumption. This effect leads to a measurement bias, but more interestingly it provides a valuable signal. The lensing signal can be extracted by correlating quasar magnitudes with the flux power spectrum and with the flux decrement. These correlations will be challenging to measure but their detection provides a direct measure of how features in the Lyman-alpha forest trace the underlying mass density field. Observing them will test the fundamental hypothesis that fluctuations in the forest are predominantly driven by fluctuations in mass, rather than in the ionizing background, helium reionization or winds. We discuss ways to disentangle the lensing signal from other sources of such correlations, including dust, continuum and background residuals. The lensing-induced measurement bias arises from sample selection: one preferentially collects spectra of magnified quasars which are behind overdense regions. This measurement bias is ~0.1-1% for the flux power spectrum, optical depth and the flux probability distribution. Since the effect is systematic, quantities such as the amplitude of the flux power spectrum averaged across scales should be interpreted with care.Comment: 22 pages, 8 figures; v2: references added, discussion expanded, matches PRD accepted versio

AID enzymatic activity is inversely proportional to the size of cytosine C5 orbital cloud

Activation induced deaminase (AID) deaminates cytosine to uracil, which is required for a functional humoral immune system. Previous work demonstrated, that AID also deaminates 5-methylcytosine (5 mC). Recently, a novel vertebrate modification (5-hydroxymethylcytosine - 5 hmC) has been implicated in functioning in epigenetic reprogramming, yet no molecular pathway explaining the removal of 5 hmC has been identified. AID has been suggested to deaminate 5 hmC, with the 5 hmU product being repaired by base excision repair pathways back to cytosine. Here we demonstrate that AID’s enzymatic activity is inversely proportional to the electron cloud size of C5-cytosine - H . F . methyl .. hydroxymethyl. This makes AID an unlikely candidate to be part of 5 hmC removal

Correlation between galaxies and QSO in the SDSS:na signal from gravitational lensing magnification?

We report a detection of galaxy-QSO cross-correlation w_GQ in the Sloan Digital Sky Survey (SDSS) Early Data Release (EDR) over 0.2-30 arc-minute scales. We cross-correlate galaxy samples of different mean depths r'=19-22 (z_G =0.15-0.35) with the main QSO population (i'<19.1) at mean z_Q=1.6. We find significant positive correlation in all cases except for the faintest QSOs, as expected if the signal were due to weak lensing magnification. The amplitude of the signal on arc-minute scales is about 20%. This is a few times larger than currently expected from weak lensing in LCDM but confirms, at a higher significance, previous measurements by several groups. When compared to the galaxy-galaxy correlation w_GG, a weak lensing interpretation indicates a strong and steep non-linear amplitude for the underlaying matter fluctuations: sigma=400 on scales of 0.2 Mpc/h, in contradiction with non-linear modeling of LCDM fluctuations. We also detect a normalized skewness (galaxy-galaxy-QSO correlation) of S_3=21 +/-6 at z=0.15 (S_3= 14 +/- 4 at z=0.35), which several sigma low, as compared to LCDM expectations. These observational trends can be reconciled with lensing in a flat Lambda universe with sigma_8=1, provided the linear spectrum is steeper (n = 1) than in the LCDM model on these small (cluster) scales. Under this interpretation, the galaxy distribution traces the matter variance with an amplitude that is 100 times smaller: ie galaxies are anti-bias with b=0.1 on small scales, increasing to b=1 at 10 Mpc/h.Comment: Final version accepted in ApJ. Minor changes and ref

Phylogenetic Analysis of the MS4A and TMEM176 Gene Families

The MS4A gene family in humans includes CD20 (MS4A1), FcRbeta (MS4A2), Htm4 (MS4A3), and at least 13 other syntenic genes encoding membrane proteins, most having characteristic tetraspanning topology. Expression of MS4A genes is variable in tissues throughout the body; however, several are limited to cells in the hematopoietic system where they have known roles in immune cell functions. Genes in the small TMEM176 group share significant sequence similarity with MS4A genes and there is evidence of immune function of at least one of the encoded proteins. In this study, we examined the evolutionary history of the MS4A/TMEM176 families as well as tissue expression of the phylogenetically earliest members, in order to investigate their possible origins in immune cells.Orthologs of human MS4A genes were found only in mammals; however, MS4A gene homologs were found in most jawed vertebrates. TMEM176 genes were found only in mammals and bony fish. Several unusual MS4A genes having 2 or more tandem MS4A sequences were identified in the chicken (Gallus gallus) and early mammals (opossum, Monodelphis domestica and platypus, Ornithorhyncus anatinus). A large number of highly conserved MS4A and TMEM176 genes was found in zebrafish (Danio rerio). The most primitive organism identified to have MS4A genes was spiny dogfish (Squalus acanthus). Tissue expression of MS4A genes in S. acanthias and D. rerio showed no evidence of expression restricted to the hematopoietic system.Our findings suggest that MS4A genes first appeared in cartilaginous fish with expression outside of the immune system, and have since diversified in many species into their modern forms with expression and function in both immune and nonimmune cells

X-ray Spectral Survey of WGACAT Quasars, II: Optical and Radio Properties of Quasars with Low Energy X-ray Cut-offs

We have selected quasars with X-ray colors suggestive of a low energy cut-off, from the ROSAT PSPC pointed archive. We examine the radio and optical properties of these 13 quasars. Five out of the seven quasars with good optical spectra show associated optical absorption lines, with two having high delta-v candidate systems. Two other cut-off quasars show reddening associated with the quasar. We conclude that absorption is highly likely to be the cause of the X-ray cut-offs, and that the absorbing material associated with the quasars, not intervening along the line-of-sight. The suggestion that Gigahertz Peaked Sources are associated with X-ray cut-offs remains unclear with this expanded sample.Comment: 17 pages, LaTeX, including 2 Tables and 1 figure. Ap.J. in pres

The Pearson-Readhead Survey of Compact Extragalactic Radio Sources From Space. II. Analysis of Source Properties

We have performed a multi-dimensional correlation analysis on the observed properties of a statistically complete core-selected sample of compact radio-loud active galactic nuclei, based on data from the VLBI Space Observing Programme (Paper I) and previously published studies. Our sample is drawn from the well-studied Pearson-Readhead (PR) survey, and is ideally suited for investigating the general effects of relativistic beaming in compact radio sources. In addition to confirming many previously known correlations, we have discovered several new trends that lend additional support to the beaming model. These trends suggest that the most highly beamed sources in core-selected samples tend to have a) high optical polarizations; b) large pc/kpc-scale jet misalignments; c) prominent VLBI core components; d) one-sided, core, or halo radio morphology on kiloparsec scales; e) narrow emission line equivalent widths; and f) a strong tendency for intraday variability at radio wavelengths. We have used higher resolution space and ground-based VLBI maps to confirm the bi-modality of the jet misalignment distribution for the PR survey, and find that the sources with aligned parsec- and kiloparsec-scale jets generally have arcsecond-scale radio emission on both sides of the core. The aligned sources also have broader emission line widths. We find evidence that the BL Lacertae objects in the PR survey are all highly beamed, and have very similar properties to the high-optically polarized quasars, with the exception of smaller redshifts. A cluster analysis on our data shows that after partialing out the effects of redshift, the luminosities of our sample objects in various wave bands are generally well-correlated with each other, but not with other source properties.Comment: 21 pages, 10 figures. Accepted for publication in the Astrophysical Journal. Part I can be found at astro-ph/010227

Thermal Degradation of Adsorbed Bottle-Brush Macromolecules: Molecular Dynamics Simulation

The scission kinetics of bottle-brush molecules in solution and on an adhesive substrate is modeled by means of Molecular Dynamics simulation with Langevin thermostat. Our macromolecules comprise a long flexible polymer backbone with $L$ segments, consisting of breakable bonds, along with two side chains of length $N$, tethered to each segment of the backbone. In agreement with recent experiments and theoretical predictions, we find that bond cleavage is significantly enhanced on a strongly attractive substrate even though the chemical nature of the bonds remains thereby unchanged. We find that the mean bond life time decreases upon adsorption by more than an order of magnitude even for brush molecules with comparatively short side chains $N=1 \div 4$. The distribution of scission probability along the bonds of the backbone is found to be rather sensitive regarding the interplay between length and grafting density of side chains. The life time declines with growing contour length $L$ as $\propto L^{-0.17}$, and with side chain length as $\propto N^{-0.53}$. The probability distribution of fragment lengths at different times agrees well with experimental observations. The variation of the mean length $L(t)$ of the fragments with elapsed time confirms the notion of the thermal degradation process as a first order reaction.Comment: 15 pages, 7 figure

Probing the Universe with Weak Lensing

Gravitational lenses can provide crucial information on the geometry of the Universe, on the cosmological scenario of formation of its structures as well as on the history of its components with look-back time. In this review, I focus on the most recent results obtained during the last five years from the analysis of the weak lensing regime. The interest of weak lensing as a probe of dark matter and the for study of the coupling between light and mass on scales of clusters of galaxies, large scale structures and galaxies is discussed first. Then I present the impact of weak lensing for the study of distant galaxies and of the population of lensed sources as function of redshift. Finally, I discuss the potential interest of weak lensing to constrain the cosmological parameters, either from pure geometrical effects observed in peculiar lenses, or from the coupling of weak lensing with the CMB.Comment: To appear Annual Review of Astronomy and Astrophysiscs Vol. 37. Latex and psfig.sty. Version without figure, 54 pages, 73Kb. Complete version including 13 figures (60 pages) available on ftp.iap.fr anonymous account in /pub/from_users/mellier/AnnualReview ; file ARAAmellier.ps.gz 1.6 M