Consensus clustering and functional interpretation of gene-expression data

Microarray analysis using clustering algorithms can suffer from lack of inter-method consistency in assigning related gene-expression profiles to clusters. Obtaining a consensus set of clusters from a number of clustering methods should improve confidence in gene-expression analysis. Here we introduce consensus clustering, which provides such an advantage. When coupled with a statistically based gene functional analysis, our method allowed the identification of novel genes regulated by NFκB and the unfolded protein response in certain B-cell lymphomas

An Analytical Study for Subsonic Oblique Wing Transport Concept

The oblique wing concept has been investigated for subsonic transport application for a cruise Mach number of 0.95. Three different mission applications were considered and the concept analyzed against the selected mission requirements. Configuration studies determined the best area of applicability to be a commercial passenger transport mission. The critical parameter for the oblique wing concept was found to be aspect ratio which was limited to a value of 6.0 due to aeroelastic divergence. Comparison of the concept final configuration was made with fixed winged configurations designed to cruise at Mach 0.85 and 0.95. The crossover Mach number for the oblique wing concept was found to be Mach 0.91 for takeoff gross weight and direct operating cost. Benefits include reduced takeoff distance, installed thrust and mission block fuel and improved community noise characteristics. The variable geometry feature enables the final configuration to increase range by 10% at Mach 0.712 and to increase endurance by as much as 44%

SU(N) chiral gauge theories on the lattice

We extend the construction of lattice chiral gauge theories based on non-perturbative gauge fixing to the non-abelian case. A key ingredient is that fermion doublers can be avoided at a novel type of critical point which is only accessible through gauge fixing, as we have shown before in the abelian case. The new ingredient allowing us to deal with the non-abelian case as well is the use of equivariant gauge fixing, which handles Gribov copies correctly, and avoids Neuberger's no-go theorem. We use this method in order to gauge fix the non-abelian group (which we will take to be SU(N)) down to its maximal abelian subgroup. Obtaining an undoubled, chiral fermion content requires us to gauge-fix also the remaining abelian gauge symmetry. This modifies the equivariant BRST identities, but their use in proving unitarity remains intact, as we show in perturbation theory. On the lattice, equivariant BRST symmetry as well as the abelian gauge invariance are broken, and a judiciously chosen irrelevant term must be added to the lattice gauge-fixing action in order to have access to the desired critical point in the phase diagram. We argue that gauge invariance is restored in the continuum limit by adjusting a finite number of counter terms. We emphasize that weak-coupling perturbation theory applies at the critical point which defines the continuum limit of our lattice chiral gauge theory.Comment: 39 pages, 3 figures, A number of clarifications adde

Stable isotopic evidence for nutrient rejuvenation and long-term resilience on Tikopia Island (Southeast Solomon Islands)

Tikopia Island, a small and relatively isolated Polynesian Outlier in the Southeast Solomon Islands, supports a remarkably dense human population with minimal external support. Examining long-term trends in human land use on Tikopia through archaeological datasets spanning nearly 3000 years presents an opportunity to investigate pathways to long-term sustainability in a tropical island setting. Here, we trace nutrient dynamics across Tikopia’s three pre-European contact phases (Kiki, Sinapupu, Tuakamali) via stable carbon and nitrogen isotope analysis of commensal Pacific rat (Rattus exulans) and domestic pig (Sus scrofa) bone and tooth dentine collagen. Our results show a decline in δ15N values from the Kiki (c. 800 BC-AD 100) to Sinapupu (c. AD 100–1200) phases, consistent with long-term commensal isotope trends observed on other Polynesian islands. However, increased δ15N coupled with lower δ13C values in the Tuakamali Phase (c. AD 1200–1800) point to a later nutrient rejuvenation, likely tied to dramatic transformations in agriculture and land use at the Sinapupu-Tuakamali transition. This study offers new, quantifiable evidence for deep-time land and resource management decisions on Tikopia and subsequent impacts on island nutrient status and long-term sustainability.1. Introduction 2. Materials and Methods 2.1. Sample Selection 2.2. Taxonomic Identification via Zooarchaeology by Mass Spectrometry (ZooMS) 2.3. Carbon and Nitrogen Stable Isotope Analysis of Bone and Tooth Dentine Collagen 3. Result

M-Dwarf Fast Rotators and the Detection of Relatively Young Multiple M-Star Systems

We have searched the Kepler light curves of ~3900 M-star targets for evidence of periodicities that indicate, by means of the effects of starspots, rapid stellar rotation. Several analysis techniques, including Fourier transforms, inspection of folded light curves, 'sonograms', and phase tracking of individual modulation cycles, were applied in order to distinguish the periodicities due to rapid rotation from those due to stellar pulsations, eclipsing binaries, or transiting planets. We find 178 Kepler M-star targets with rotation periods, P_rot, of < 2 days, and 110 with P_rot < 1 day. Some 30 of the 178 systems exhibit two or more independent short periods within the same Kepler photometric aperture, while several have three or more short periods. Adaptive optics imaging and modeling of the Kepler pixel response function for a subset of our sample support the conclusion that the targets with multiple periods are highly likely to be relatively young physical binary, triple, and even quadruple M star systems. We explore in detail the one object with four incommensurate periods all less than 1.2 days, and show that two of the periods arise from one of a close pair of stars, while the other two arise from the second star, which itself is probably a visual binary. If most of these M-star systems with multiple periods turn out to be bound M stars, this could prove a valuable way of discovering young hierarchical M-star systems; the same approach may also be applicable to G and K stars. The ~5% occurrence rate of rapid rotation among the ~3900 M star targets is consistent with spin evolution models that include an initial contraction phase followed by magnetic braking, wherein a typical M star can spend several hundred Myr before spinning down to periods longer than 2 days.Comment: 17 pages, 12 figures, 2 tables; accepted for publication in The Astrophysical Journa

Inelastic collapse of a randomly forced particle

We consider a randomly forced particle moving in a finite region, which rebounds inelastically with coefficient of restitution r on collision with the boundaries. We show that there is a transition at a critical value of r, r_c\equiv e^{-\pi/\sqrt{3}}, above which the dynamics is ergodic but beneath which the particle undergoes inelastic collapse, coming to rest after an infinite number of collisions in a finite time. The value of r_c is argued to be independent of the size of the region or the presence of a viscous damping term in the equation of motion.Comment: 4 pages, REVTEX, 2 EPS figures, uses multicol.sty and epsf.st

First-order phase transition in a 2D random-field Ising model with conflicting dynamics

The effects of locally random magnetic fields are considered in a nonequilibrium Ising model defined on a square lattice with nearest-neighbors interactions. In order to generate the random magnetic fields, we have considered random variables $\{h\}$ that change randomly with time according to a double-gaussian probability distribution, which consists of two single gaussian distributions, centered at $+h_{o}$ and $-h_{o}$, with the same width $\sigma$. This distribution is very general, and can recover in appropriate limits the bimodal distribution ($\sigma\to 0$) and the single gaussian one ($ho=0$). We performed Monte Carlo simulations in lattices with linear sizes in the range $L=32 - 512$. The system exhibits ferromagnetic and paramagnetic steady states. Our results suggest the occurence of first-order phase transitions between the above-mentioned phases at low temperatures and large random-field intensities $h_{o}$, for some small values of the width $\sigma$. By means of finite size scaling, we estimate the critical exponents in the low-field region, where we have continuous phase transitions. In addition, we show a sketch of the phase diagram of the model for some values of $\sigma$.Comment: 13 pages, 9 figures, accepted for publication in JSTA

A Pre-Protostellar Core in L1551

Large field surveys of NH3, C2S, 13CO and C18O in the L1551 dark cloud have revealed a prolate, pre-protostellar molecular core (L1551-MC) in a relatively quiescent region to the northwest of the well-known IRS 5 source. The kinetic temperature is measured to be 9K, the total mass is ~2Msun, and the average particle density is 10^4-10^5 cm^(-3). L1551-MC is 2.25' x 1.11' in projection oriented at a position angle of 133deg. The turbulent motions are on the order of the sound speed in the medium and contain 4% of the gravitational energy, E_{grav}, of the core. The angular momentum vector is projected along the major axis of L1551-MC corresponding to a rotational energy of 2.5E-3(sin i)^(-2)|E_{grav}|. The thermal energy constitutes about a third of |E_{grav}| and the virial mass is approximately equal to the total mass. L1551-MC is gravitationally bound and in the absence of strong, ~160 microgauss, magnetic fields will likely contract on a ~0.3 Myr time scale. The line profiles of many molecular species suggest that the cold quiescent interior is surrounded by a dynamic, perhaps infalling envelope which is embedded within the ambient molecular gas of L1551.Comment: 27 pages, 7 figures, ApJ accepte

Glassy behaviour in an exactly solved spin system with a ferromagnetic transition

We show that applying simple dynamical rules to Baxter's eight-vertex model leads to a system which resembles a glass-forming liquid. There are analogies with liquid, supercooled liquid, glassy and crystalline states. The disordered phases exhibit strong dynamical heterogeneity at low temperatures, which may be described in terms of an emergent mobility field. Their dynamics are well-described by a simple model with trivial thermodynamics, but an emergent kinetic constraint. We show that the (second order) thermodynamic transition to the ordered phase may be interpreted in terms of confinement of the excitations in the mobility field. We also describe the aging of disordered states towards the ordered phase, in terms of simple rate equations.Comment: 11 page