Reversibility Checking for Markov Chains

In this paper, we present reversibility preserving operations on Markov chain transition matrices. Simple row and column operations allow us to create new reversible transition matrices and yield an easy method for checking a Markov chain for reversibility

Temperature dependence of electron-spin relaxation in a single InAs quantum dot at zero applied magnetic field

The temperature-dependent electron spin relaxation of positively charged excitons in a single InAs quantum dot (QD) was measured by time-resolved photoluminescence spectroscopy at zero applied magnetic fields. The experimental results show that the electron-spin relaxation is clearly divided into two different temperature regimes: (i) T < 50 K, spin relaxation depends on the dynamical nuclear spin polarization (DNSP) and is approximately temperature-independent, as predicted by Merkulov et al. (ii) T > about 50 K, spin relaxation speeds up with increasing temperature. A model of two LO phonon scattering process coupled with hyperfine interaction is proposed to account for the accelerated electron spin relaxation at higher temperatures.Comment: 10 pages, 4 figure

Human Neutrophil Elastase Degrades SPLUNC1 and Impairs Airway Epithelial Defense against Bacteria

Background:Acute exacerbations of chronic obstructive pulmonary disease (AECOPD) are a significant cause of mortality of COPD patients, and pose a huge burden on healthcare. One of the major causes of AECOPD is airway bacterial (e.g. nontypeable Haemophilus influenzae [NTHi]) infection. However, the mechanisms underlying bacterial infections during AECOPD remain poorly understood. As neutrophilic inflammation including increased release of human neutrophil elastase (HNE) is a salient feature of AECOPD, we hypothesized that HNE impairs airway epithelial defense against NTHi by degrading airway epithelial host defense proteins such as short palate, lung, and nasal epithelium clone 1 (SPLUNC1).Methodology/Main Results:Recombinant human SPLUNC1 protein was incubated with HNE to confirm SPLUNC1 degradation by HNE. To determine if HNE-mediated impairment of host defense against NTHi was SPLUNC1-dependent, SPLUNC1 protein was added to HNE-treated primary normal human airway epithelial cells. The in vivo function of SPLUNC1 in NTHi defense was investigated by infecting SPLUNC1 knockout and wild-type mice intranasally with NTHi. We found that: (1) HNE directly increased NTHi load in human airway epithelial cells; (2) HNE degraded human SPLUNC1 protein; (3) Recombinant SPLUNC1 protein reduced NTHi levels in HNE-treated human airway epithelial cells; (4) NTHi levels in lungs of SPLUNC1 knockout mice were increased compared to wild-type mice; and (5) SPLUNC1 was reduced in lungs of COPD patients.Conclusions:Our findings suggest that SPLUNC1 degradation by neutrophil elastase may increase airway susceptibility to bacterial infections. SPLUNC1 therapy likely attenuates bacterial infections during AECOPD. © 2013 Jiang et al

Thermodynamical quantities of lattice full QCD from an efficient method

I extend to QCD an efficient method for lattice gauge theory with dynamical fermions. Once the eigenvalues of the Dirac operator and the density of states of pure gluonic configurations at a set of plaquette energies (proportional to the gauge action) are computed, thermodynamical quantities deriving from the partition function can be obtained for arbitrary flavor number, quark masses and wide range of coupling constants, without additional computational cost. Results for the chiral condensate and gauge action are presented on the $10^4$ lattice at flavor number $N_f=0$, 1, 2, 3, 4 and many quark masses and coupling constants. New results in the chiral limit for the gauge action and its correlation with the chiral condensate, which are useful for analyzing the QCD chiral phase structure, are also provided.Comment: Latex, 11 figures, version accepted for publicatio

TRED: a transcriptional regulatory element database, new entries and other development

Transcriptional factors (TFs) and many of their target genes are involved in gene regulation at the level of transcription. To decipher gene regulatory networks (GRNs) we require a comprehensive and accurate knowledge of transcriptional regulatory elements. TRED () was designed as a resource for gene regulation and function studies. It collects mammalian cis- and trans-regulatory elements together with experimental evidence. All the regulatory elements were mapped on to the assembled genomes. In this new release, we included a total of 36 TF families involved in cancer. Accordingly, the number of target promoters and genes for TF families has increased dramatically. There are 11 660 target genes (7479 in human, 2691 in mouse and 1490 in rat) and 14 908 target promoters (10 225 in human, 2985 in mouse and 1698 in rat). Additionally, we constructed GRNs for each TF family by connecting the TF–target gene pairs. Such interaction data between TFs and their target genes will assist detailed functional studies and help to obtain a panoramic view of the GRNs for cancer research

Quantifying N response and N use efficiency in Rice-Wheat (RW) cropping systems under different water management

About 0·10 of the food supply in China is produced in rice¿wheat (RW) cropping systems. In recent decades, nitrogen (N) input associated with intensification has increased much more rapidly than N use in these systems. The resulting nitrogen surplus increases the risk of environmental pollution as well as production costs. Limited information on N dynamics in RW systems in relation to water management hampers development of management practices leading to more efficient use of nitrogen and water. The present work studied the effects of N and water management on yields of rice and wheat, and nitrogen use efficiencies (NUEs) in RW systems. A RW field experiment with nitrogen rates from 0 to 300 kg N/ha with continuously flooded and intermittently irrigated rice crops was carried out at the Jiangpu experimental station of Nanjing Agricultural University of China from 2002 to 2004 to identify improved nitrogen management practices in terms of land productivity and NUE. Nitrogen uptake by rice and wheat increased with increasing N rates, while agronomic NUE (kg grain/kg N applied) declined at rates exceeding 150 kg N/ha. The highest combined grain yields of rice and wheat were obtained at 150 and 300 kg N/ha per season in rice and wheat, respectively. Carry-over of residual N from rice to the subsequent wheat crop was limited, consistent with low soil nitrate after rice harvest. Total soil N hardly changed during the experiment, while soil nitrate was much lower after wheat than after rice harvest. Water management did not affect yield and N uptake by rice, but apparent N recovery was higher under intermittent irrigation (II). In one season, II management in rice resulted in higher yield and N uptake in the subsequent wheat season. Uptake of indigenous soil N was much higher in rice than in wheat, while in rice it was much higher than values reported in the literature, which may have consequences for nitrogen fertilizer recommendations based on indigenous N suppl

Hawking radiation from the Schwarzschild black hole with a global monopole via gravitational anomaly

Hawking flux from the Schwarzschild black hole with a global monopole is obtained by using Robinson and Wilczek's method. Adopting a dimension reduction technique, the effective quantum field in the (3+1)--dimensional global monopole background can be described by an infinite collection of the (1+1)--dimensional massless fields if neglecting the ingoing modes near the horizon, where the gravitational anomaly can be cancelled by the (1+1)--dimensional black body radiation at the Hawking temperature.Comment: 4 pages, no figure, 3nd revsion with one reference adde