Harmonic Analysis of Boolean Networks: Determinative Power and Perturbations

Consider a large Boolean network with a feed forward structure. Given a probability distribution on the inputs, can one find, possibly small, collections of input nodes that determine the states of most other nodes in the network? To answer this question, a notion that quantifies the determinative power of an input over the states of the nodes in the network is needed. We argue that the mutual information (MI) between a given subset of the inputs X = {X_1, ..., X_n} of some node i and its associated function f_i(X) quantifies the determinative power of this set of inputs over node i. We compare the determinative power of a set of inputs to the sensitivity to perturbations to these inputs, and find that, maybe surprisingly, an input that has large sensitivity to perturbations does not necessarily have large determinative power. However, for unate functions, which play an important role in genetic regulatory networks, we find a direct relation between MI and sensitivity to perturbations. As an application of our results, we analyze the large-scale regulatory network of Escherichia coli. We identify the most determinative nodes and show that a small subset of those reduces the overall uncertainty of the network state significantly. Furthermore, the network is found to be tolerant to perturbations of its inputs

A Search for FeH in Hot-Jupiter Atmospheres with High-Dispersion Spectroscopy

Most of the molecules detected thus far in exoplanet atmospheres, such as water and CO, are present for a large range of pressures and temperatures. In contrast, metal hydrides exist in much more specific regimes of parameter space, and so can be used as probes of atmospheric conditions. Iron hydride (FeH) is a dominant source of opacity in low-mass stars and brown dwarfs, and evidence for its existence in exoplanets has recently been observed at low resolution. We performed a systematic search of archival CARMENES near-infrared data for signatures of FeH during transits of 12 exoplanets. These planets span a large range of equilibrium temperatures (600 $\lesssim T_{eq} \lesssim$ 4000K) and surface gravities (2.5 $\lesssim \mathrm{log} g \lesssim$ 3.5). We did not find a statistically significant FeH signal in any of the atmospheres, but obtained potential low-confidence signals (SNR$\sim$3) in two planets, WASP-33b and MASCARA-2b. Previous modeling of exoplanet atmospheres indicate that the highest volume mixing ratios (VMRs) of 10$^{-7}$ to 10$^{-9}$ are expected for temperatures between 1800 and 3000K and log $g \gtrsim3$. The two planets for which we find low-confidence signals are in the regime where strong FeH absorption is expected. We performed injection and recovery tests for each planet and determined that FeH would be detected in every planet for VMRs $\geq 10^{-6}$, and could be detected in some planets for VMRs as low as 10$^{-9.5}$. Additional observations are necessary to conclusively detect FeH and assess its role in the temperature structures of hot Jupiter atmospheres.Comment: Accepted to AAS journal

Magnetic inflation and Stellar Mass. II. On the radii of wingle, rapidly rotating, fully convective M-dwarf stars

Main-sequence, fully convective M dwarfs in eclipsing binaries are observed to be larger than stellar evolutionary models predict by as much as 10%–15%. A proposed explanation for this discrepancy involves effects from strong magnetic fields, induced by rapid rotation via the dynamo process. Although, a handful of single, slowly rotating M dwarfs with radius measurements from interferometry also appear to be larger than models predict, suggesting that rotation or binarity specifically may not be the sole cause of the discrepancy. We test whether single, rapidly rotating, fully convective stars are also larger than expected by measuring their $R\sin i$ distribution. We combine photometric rotation periods from the literature with rotational broadening ($v\sin i$) measurements reported in this work for a sample of 88 rapidly rotating M dwarf stars. Using a Bayesian framework, we find that stellar evolutionary models underestimate the radii by 10 \% \mbox{--}15{ \% }_{-2.5}^{+3}, but that at higher masses (0.18 < M < 0.4 M Sun), the discrepancy is only about 6% and comparable to results from interferometry and eclipsing binaries. At the lowest masses (0.08 < M < 0.18 M Sun), we find that the discrepancy between observations and theory is 13%–18%, and we argue that the discrepancy is unlikely to be due to effects from age. Furthermore, we find no statistically significant radius discrepancy between our sample and the handful of M dwarfs with interferometric radii. We conclude that neither rotation nor binarity are responsible for the inflated radii of fully convective M dwarfs, and that all fully convective M dwarfs are larger than models predict.The authors would like to thank the referee for the thoughtful report, which greatly improved the manuscript. The authors would also like to thank Lisa Prato and Larissa Nofi for IGRINS training, and Heidi Larson, Jason Sanborn, and Andrew Hayslip for operating the DCT during our observations. We would also like to thank Jen Winters, Jonathan Irwin, Paul Dalba, Mark Veyette, Eunkyu Han, and Andrew Vanderburg for useful discussions and helpful comments on this work. Some of this work was supported by the NASA Exoplanet Research Program (XRP) under grant No. NNX15AG08G issued through the Science Mission Directorate.These results made use of the Lowell Observatory's Discovery Channel Telescope, supported by Discovery Communications, Inc., Boston University, the University of Maryland, the University of Toledo and Northern Arizona University; the Immersion Grating Infrared Spectrograph (IGRINS) that was developed under a collaboration between the University of Texas at Austin and the Korea Astronomy and Space Science Institute (KASI) with the financial support of the US National Science Foundation under grant AST-1229522, of the University of Texas at Austin, and of the Korean GMT Project of KASI; data taken at The McDonald Observatory of The University of Texas at Austin; and data products from the Two Micron All Sky Survey, which is a joint project of the University of Massachusetts and the Infrared Processing and Analysis Center/California Institute of Technology, funded by NASA and the NSF. (NNX15AG08G - NASA Exoplanet Research Program (XRP); Discovery Communications, Inc.; Boston University; University of Maryland; University of Toledo; Northern Arizona University; AST-1229522 - US National Science Foundation; University of Texas at Austin; Korean GMT Project of KASI; NASA; NSF

iPTF Archival Search for Fast Optical Transients

There has been speculation about a class of relativistic explosions with an initial Lorentz factor Γ_init smaller than that of classical gamma-ray bursts (GRBs). These “dirty fireballs” would lack prompt GRB emission but could be pursued via their optical afterglow, appearing as transients that fade overnight. Here we report a search for such transients (that fade by 5-σ in magnitude overnight) in four years of archival photometric data from the intermediate Palomar Transient Factory (iPTF). Our search criteria yielded 50 candidates. Of these, two were afterglows to GRBs that had been found in dedicated follow-up observations to triggers from the Fermi GRB Monitor. Another (iPTF14yb) was a GRB afterglow discovered serendipitously. Eight were spurious artifacts of reference image subtraction, and one was an asteroid. The remaining 38 candidates have red stellar counterparts in external catalogs. The photometric and spectroscopic properties of the counterparts identify these transients as strong flares from M dwarfs of spectral type M3–M7 at distances of d ≈ 0.15–2.1 kpc; three counterparts were already spectroscopically classified as late-type M stars. With iPTF14yb as the only confirmed relativistic outflow discovered independently of a high-energy trigger, we constrain the all-sky rate of transients that peak at m = 18 and fade by Δm = 2 mag in Δt = 3 hr to be 680 yr-1, with a 68% confidence interval of 119-2236 {{yr}}-1. This implies that the rate of visible dirty fireballs is at most comparable to that of the known population of long-duration GRBs

Inequalities in health and health service utilisation among reproductive age women in St. Petersburg, Russia: a cross-sectional study

<p>Abstract</p> <p>Background</p> <p>Russian society has faced dramatic changes in terms of social stratification since the collapse of the Soviet Union. During this time, extensive reforms have taken place in the organisation of health services, including the development of the private sector. Previous studies in Russia have shown a wide gap in mortality between socioeconomic groups. There are just a few studies on health service utilisation in post-Soviet Russia and data on inequality of health service use are limited. The aim of the present study was to analyse health (self-rated health and self-reported chronic diseases) and health care utilisation patterns by socioeconomic status (SES) among reproductive age women in St. Petersburg.</p> <p>Methods</p> <p>The questionnaire survey was conducted in 2004 (n = 1147), with a response rate of 67%. Education and income were used as dimensions of SES. The association between SES and health and use of health services was assessed by logistic regression, adjusting for age.</p> <p>Results</p> <p>As expected low SES was associated with poor self-rated health (education: OR = 1.48; personal income: OR = 1.42: family income: OR = 2.31). University education was associated with use of a wider range of outpatient medical services and increased use of the following examinations: Pap smear (age-adjusted OR = 2.06), gynaecological examinations (age-adjusted OR = 1.62) and mammography among older (more than 40 years) women (age-adjusted OR = 1.98). Personal income had similar correlations, but family income was related only to the use of mammography among older women.</p> <p>Conclusions</p> <p>Our study suggests a considerable inequality in health and utilisation of preventive health service among reproductive age women. Therefore, further studies are needed to identify barriers to health promotion resources.</p

YSOVAR: Mid-infrared Variability Among YSOs in the Star Formation Region GGD 12-15

S. J. Wolk, et al., “YSOVAR: Mid-infrared Variability Among YSOs in the Star Formation Region GGD 12-15”, The Astronomical Journal, Vol. 150(5), October 2015. © 2015. The American Astronomical Society. All rights reserved.We present an IR-monitoring survey with the $Spitzer$ Space Telescope of the star forming region GGD 12-15. Over 1000 objects were monitored including about 350 objects within the central 5 arcminutes which is found to be especially dense in cluster members. The monitoring took place over 38 days and is part of the Young Stellar Object VARiability (YSOVAR) project. The region was also the subject of a contemporaneous 67ks $Chandra$ observation. The field includes 119 previously identified pre-main sequence star candidates. X-rays are detected from 164 objects, 90 of which are identified with cluster members. Overall, we find that about half the objects in the central 5 arcminutes are young stellar objects based on a combination of their spectral energy distribution, IR variability and X-ray emission. Most of the stars with IR excess relative to a photosphere show large amplitude (>0.1 mag) mid-IR variability. There are 39 periodic sources, all but one of these is found to be a cluster member. Almost half of the periodic sources do not show IR excesses. Overall, more than 85% of the Class I, flat spectrum, and Class II sources are found to vary. The amplitude of the variability is larger in more embedded young stellar objects. Most of the Class~I/II objects exhibit redder colors in a fainter state, compatible with time-variable extinction. A few become bluer when fainter, which can be explained with significant changes in the structure of the inner disk. A search for changes in the IR due to X-ray events is carried out, but the low number of flares prevented an analysis of the direct impact of X-ray flares on the IR lightcurves. However, we find that X-ray detected Class II sources have longer timescales for change in the mid-IR than a similar set of non-X-ray detected Class IIs.Peer reviewe

Efficient QTL detection for nonhost resistance in wild lettuce: backcross inbred lines versus F2 population

In plants, several population types [F2, recombinant inbred lines, backcross inbred lines (BILs), etc.] are used for quantitative trait locus (QTL) analyses. However, dissection of the trait of interest and subsequent confirmation by introgression of QTLs for breeding purposes has not been as successful as that predicted from theoretical calculations. More practical knowledge of different QTL mapping approaches is needed. In this recent study, we describe the detection and mapping of quantitative resistances to downy mildew in a set of 29 BILs of cultivated lettuce (L. sativa) containing genome segments introgressed from wild lettuce (L. saligna). Introgression regions that are associated with quantitative resistance are considered to harbor a QTL. Furthermore, we compare this with results from an already existing F2 population derived from the same parents. We identified six QTLs in our BIL approach compared to only three in the F2 approach, while there were two QTLs in common. We performed a simulation study based on our actual data to help us interpret them. This revealed that two newly detected QTLs in the BILs had gone unnoticed in the F2, due to a combination of recessiveness of the trait and skewed segregation, causing a deficit of the wild species alleles. This study clearly illustrates the added value of extended genetic studies on two different population types (BILs and F2) to dissect complex genetic traits

A Model for (Quasi-)Periodic Multiwavelength Photometric Variability in Young Stellar Objects

We present radiation transfer models of rotating young stellar objects (YSOs) with hotspots in their atmospheres, inner disk warps and other 3-D effects in the nearby circumstellar environment. Our models are based on the geometry expected from the magneto-accretion theory, where material moving inward in the disk flows along magnetic field lines to the star and creates stellar hotspots upon impact. Due to rotation of the star and magnetosphere, the disk is variably illuminated. We compare our model light curves to data from the Spitzer YSOVAR project (Morales-Calderon et al. 2014, Cody et al. 2014) to determine if these processes can explain the variability observed at optical and mid-infrared wavelengths in young stars. We focus on those variables exhibiting "dipper" behavior that may be periodic, quasi-periodic, or aperiodic. We find that the stellar hotspot size and temperature affects the optical and near-infrared light curves, while the shape and vertical extent of the inner disk warp affects the mid-IR light curve variations. Clumpy disk distributions with non-uniform fractal density structure produce more stochastic light curves. We conclude that the magneto-accretion theory is consistent with certain aspects of the multi-wavelength photometric variability exhibited by low-mass YSOs. More detailed modeling of individual sources can be used to better determine the stellar hotspot and inner disk geometries of particular sources.Comment: Accepted to Ap

Transmission spectroscopy of MASCARA-1b with ESPRESSO: Challenges of overlapping orbital and Doppler tracks

Atmospheric studies at high spectral resolution have shown the presence of molecules, neutral and ionised metals, and hydrogen in the transmission spectrum of ultra-hot Jupiters, and have started to probe the dynamics of their atmospheres. We analyse the transmission spectrum of MASCARA-1b, one of the densest ultra-hot Jupiters orbiting a bright (V = 8.3) star. We focus on the CaII H&K, NaI doublet, LiI, Hα, and KI D1 spectral lines and on the cross-correlated FeI, Fe II, CaI, YI, VI, VII, CaH, and TiO lines. For those species that are not present in the stellar spectrum, no detections are reported, but we are able to measure upper limits with an excellent precision (~10 ppm for particular species) thanks to the signal-to-noise ratio (S/N) achieved with Echelle SPectrograph for Rocky Exoplanets and Stable Spectroscopic Observations (ESPRESSO) observations. For those species that are present in the stellar spectrum and whose planet-occulted spectral lines induce spurious features in the planetary transmission spectrum, an accurate modelling of the Rossiter-McLaughlin effect (RM) and centre-to-limb variations (CLV) is necessary to recover possible atmospheric signals. In the case of MASCARA-1b, this is difficult due to the overlap between the radial velocities of the stellar surface regions occulted by MASCARA-1b and the orbital track along which the planet atmospheric signal is expected to be found. To try to disentangle a possible planetary signal, we compare our results with models of the RM and CLV effects, and estimate the uncertainties of our models depending on the different system parameters. Unfortunately, more precise measurements of the spin-orbit angle are necessary to better constrain the planet-occulted track and correct for the transit effects in the transmission spectrum with enough precision to be able to detect or discard possible planetary absorptions. Finally, we discuss the possibility that non-detections are related to the low absorption expected for a high surface gravity planet such as MASCARA-1b. Other techniques such as emission spectroscopy may be more useful for exploring their atmospheric composition. Based on guaranteed time observations (GTOs) collected at the European Southern Observatory (ESO) under ESO programme 1102.C-0744 by the ESPRESSO Consortium

Analysis of RAPD and AFLP markers linked to resistance to Fusarium oxysporum f. sp. lactucae race 2 in lettuce (Lactuca sativa L.)

Root rot of lettuce, which is caused by Fusarium oxysporum f. sp. lactucae (FOL), is a critical problem in the production of lettuce. FOL-resistant lettuce genetic resources have been identified and used in breeding programs to produce FOL-resistant cultivars. However, the genetic characteristics of resistance genes have not been studied in depth and, therefore, no DNA markers are presently available for these genes. In this study, we analyzed the RRD2 (resistance for root rot disease race 2) locus, which confers resistance to FOL race 2. Resistance loci were analyzed using two cultivars of crisphead lettuce: VP1013 (resistant) and Patriot (susceptible). The segregation patterns of resistant phenotypes in F-2 indicated a single major locus. To define the positions of resistance loci, a linkage map was constructed using amplified fragment length polymorphism and random amplified polymorphic DNA (RAPD) markers. Quantitative trait loci analysis revealed the position of the major resistance locus. A high LOD score was observed for RAPD-marker WF25-42, and this marker showed good correspondence to the phenotype in different cultivars and lines. We successfully developed a sequence characterized amplified region marker from WF25-42.ArticleEUPHYTICA. 187(1):1-9 (2012)journal articl