bluuebunny/crossref_metadata_2025_split huggingface dataset:
Global incidence and mortality of idiopathic pulmonary fibrosis: a systematic review
Authors: Hutchinson John , Fogarty Andrew , Hubbard Richard , McKeever Tricia 
Published: May 2015

As idiopathic pulmonary fibrosis emerges as an important public health problem, there is a need to coordinate data on incidence and mortality globally. This study aims to systematically assess all available studies to investigate the global burden of disease.Medline and Embase databases were searched systematically for all population-based studies of incidence or mortality of idiopathic pulmonary fibrosis. Clinical case series and prevalence studies were excluded. The search was supplemented using the Google search engine, hand-searching of references and conference abstracts. Data were extracted independently by two authors using a pre-specified proforma, with assessment of methodological quality.34 studies were identified, providing data from 21 countries from 1968–2012. 28 studies reported incidence data and eight reported mortality data. In studies from the year 2000 onwards, we estimated a conservative incidence range of 3–9 cases per 100 000 per year for Europe and North America. Incidence was lower in East Asia and South America. The majority of studies showed an increase in incidence over time.The incidence of idiopathic pulmonary fibrosis is increasing worldwide and rates are coming together across countries. Current data suggest incidence is similar to that of conditions such as stomach, liver, testicular and cervical cancers.
Pulmonary vascular response patterns during exercise in interstitial lung disease
Authors: Degani-Costa Luiza H. , Levarge Barbara , Digumarthy Subba R. , Eisman Aaron S. , Harris R. Scott , Lewis Gregory D. 
Published: May 2015

When overt pulmonary hypertension arises in interstitial lung disease (ILD), it contributes to exercise intolerance. We sought to determine the functional significance of abnormal pulmonary arterial pressure (PAP) responses to exercise in ILD.27 ILD patients and 11 age-matched controls underwent invasive cardiopulmonary exercise testing (iCPET). Mean PAP (mPAP) was indexed to cardiac output (Q´T) during exercise, with a mPAP–Q´Tslope ≥3 mmHg·min·L−1defined as an abnormal pulmonary vascular response.All control subjects had mPAP–Q´Tslopes <3 mmHg·min·L−1(mean±sem1.5±0.1 mmHg·min·L−1). 15 ILD patients had mPAP–Q´Tslopes ≥3 mmHg·min·L−1(4.1±0.2 mmHg·min·L−1) and were labelled as having ILD plus pulmonary vascular dysfunction (PVD). Subjects without pulmonary hypertension and with mPAP–Q´Tslopes <3 mmHg·min·L−1(1.9±0. 2 mmHg·min·L−1) were labelled as ILD minus PVD (n=12). ILD+PVD and ILD−PVD patients did not differ in terms of age, sex, body mass index, pulmonary function testing or degree of exercise oxygen desaturation. Peak oxygen consumption was lower in ILD+PVD than in ILD−PVD (13.0±0.9versus17±1.1 mL·kg−1·min−1, p=0.012) and controls (19.8±1.7 mL·kg−1·min−1, p=0.003). ILD+PVD patients had increased dead space volume (VD)/tidal volume (VT) and minute ventilation/carbon dioxide production at the anaerobic threshold.In ILD, mPAP–Q´Tslope ≥3 mmHg·min·L−1is associated with lower peak oxygen consumption, increasedVD/VTand inefficient ventilation. While noninvasive parameters were unable to predict those with abnormal pulmonary vascular responses to exercise, iCPET-derived mPAP–Q´Tslope may aid in identifying physiologically significant, early pulmonary vascular disease in ILD.
Scalability of the Heat and Current Treatment on SWCNTs to Improve their Crystallinity and Thermal and Electrical Conductivities
Authors: Matsumoto Naoyuki , Oshima Azusa , Sakurai Shunsuke , Yumura Motoo , Hata Kenji , Futaba Don N 
Published: May 2015

Abstract
We have investigated the scalability of our post-synthesis graphitization process for single-walled carbon nanotubes (SWCNTs), which applies heat and current to SWCNTs to improve the thermal and electrical conductivities. This investigation was performed by examining the relationship between the processing conditions and the amount of treated SWCNTs. Characterization of all cases of treated SWCNTs showed the same level of improvement of ~3 times to both the thermal and electrical conductivities and that the SWCNTs remained SWCNTs, i.e., no change in diameter or wall number. These results provided evidence that the ability to improve the crystallinity of the SWCNTs was independent of the treatment amount. Further, our results showed that an increase in SWCNT amount required increased applied current density or increased in applied temperature to achieve optimum property improvement. Finally, we found a trade-off between the current density and temperature indicating that either a high current or high temperature was required to achieve the optimum process conditions. These results demonstrated that our heat and current SWCNT treatment was fundamentally scalable and applied towards larger scale (i.e., gram-level or more) amounts of SWCNT.
A dynamic evolutionary and functional landscape of plant phased small interfering RNAs
Authors: Zheng Yi , Wang Ying , Wu Jian , Ding Biao , Fei Zhangjun 
Published: May 2015

Abstract

Background
Secondary, phased small interfering RNAs (phasiRNAs) derived from protein-coding or noncoding loci (PHAS) are emerging as a new type of regulators of gene expression in plants. However, the evolution and function of these novel siRNAs in plant species remain largely unexplored.

Results
We systematically analyzed PHAS loci in 23 plant species covering major phylogenetic groups spanning alga, moss, gymnosperm, basal angiosperm, monocot, and dicot. We identified over 3,300 PHAS loci, among which ~1,600 were protein-coding genes. Most of these PHAS loci were novel and clade- or species-specific and showed distinct expression patterns in association with particular development stages, viral infection, or abiotic stresses. Unexpectedly, numerous PHAS loci produced phasiRNAs from introns or exon–intron junction regions. Our comprehensive analysis suggests that phasiRNAs predominantly regulate protein-coding genes from which they are derived and genes from the same families of the phasiRNA-deriving genes, in contrast to the dominant trans-regulatory mode of miRNAs. The stochastic occurrence of many PHAS loci in the plant kingdom suggests their young evolutionary origins.

Conclusions
Our study discovered an unprecedented diversity of protein-coding genes that produce phasiRNAs in a wide variety of plants, and set a kingdom-wide foundation for investigating the novel roles of phasiRNAs in shaping phenotype diversities of plants.
Mass cytometry as a platform for the discovery of cellular biomarkers to guide effective rheumatic disease therapy
Authors: Nair Nitya , Mei Henrik E , Chen Shih-Yu , Hale Matthew , Nolan Garry P , Maecker Holden T , Genovese Mark , Fathman C Garrison , Whiting Chan C 
Published: May 2015

AbstractThe development of biomarkers for autoimmune diseases has been hampered by a lack of understanding of disease etiopathogenesis and of the mechanisms underlying the induction and maintenance of inflammation, which involves complex activation dynamics of diverse cell types. The heterogeneous nature and suboptimal clinical response to treatment observed in many autoimmune syndromes highlight the need to develop improved strategies to predict patient outcome to therapy and personalize patient care. Mass cytometry, using CyTOF®, is an advanced technology that facilitates multiparametric, phenotypic analysis of immune cells at single-cell resolution. In this review, we outline the capabilities of mass cytometry and illustrate the potential of this technology to enhance the discovery of cellular biomarkers for rheumatoid arthritis, a prototypical autoimmune disease.
Automated classification for HEp-2 cells based on linear local distance coding framework
Authors: Xu Xiang , Lin Feng , Ng Carol , Leong Khai Pang 
Published: May 2015

Abstract
The occurrence of antinuclear antibodies (ANAs) in patient serum has significant relation to some specific autoimmune diseases. Indirect immunofluorescence (IIF) on human epithelial type 2 (HEp-2) cells is the recommended methodology for detecting ANAs in clinic practice. However, the currently practiced manual detection system suffers from serious problems due to subjective evaluation. In this paper, we present an automated system for HEp-2 cells classification. We adopt a bag-of-words (BoW) framework which has shown impressive performance in image classification tasks because it can obtain discriminative and effective image representation. However, the information loss is inevitable in the coding process. Therefore, we propose a linear local distance coding (LLDC) method to capture more discriminative information. Our LLDC method transforms original local feature to more discriminative local distance vector by searching for local nearest few neighbors of the local feature in the class-specific manifolds. The obtained local distance vector is further encoded and pooled together to get salient image representation. The LLDC method is combined with the traditional coding methods to achieve higher classification accuracy. Incorporated with a linear support vector machine classifier, our proposed method demonstrated its effectiveness on two public datasets, namely, the International Conference on Pattern Recognition (ICPR) 2012 dataset and the International Conference on Image Processing (ICIP) 2013 training dataset. Experimental results show that the LLDC framework can achieve superior performance to the state-of-the-art coding methods for staining pattern classification of HEp-2 cells.
Parallel computing subgradient method for nonsmooth convex optimization over the intersection of fixed point sets of nonexpansive mappings
Authors: Iiduka Hideaki 
Published: May 2015

AbstractNonsmooth convex optimization problems are solved over fixed point sets of nonexpansive mappings by using a distributed optimization technique. This is done for a networked system with an operator, who manages the system, and a finite number of users, by solving the problem of minimizing the sum of the operator’s and users’ nondifferentiable, convex objective functions over the intersection of the operator’s and users’ convex constraint sets in a real Hilbert space. We assume that each of their constraint sets can be expressed as the fixed point set of an implementable nonexpansive mapping. This setting allows us to discuss nonsmooth convex optimization problems in which the metric projection onto the constraint set cannot be calculated explicitly. We propose a parallel subgradient algorithm for solving the problem by using the operator’s attribution such that it can communicate with all users. The proposed algorithm does not use any proximity operators, in contrast to conventional parallel algorithms for nonsmooth convex optimization. We first study its convergence property for a constant step-size rule. The analysis indicates that the proposed algorithm with a small constant step size approximates a solution to the problem. We next consider the case of a diminishing step-size sequence and prove that there exists a subsequence of the sequence generated by the algorithm which weakly converges to a solution to the problem. We also give numerical examples to support the convergence analyses.
Teleost leukocyte immune-type receptors activate distinct phagocytic modes for target acquisition and engulfment
Authors: Lillico Dustin M E , Zwozdesky Myron A , Pemberton Joshua G , Deutscher Julianna M , Jones Lena O , Chang John P , Stafford James L 
Published: May 2015

Abstract
Channel catfish (Ictalurus punctatus) IpLITRs belong to the Ig superfamily and regulate innate immune cell effector responses. This study tested the hypothesis that ITAM-dependent and ITAM-independent phagocytic pathways are engaged by different subtypes of the IpLITR family. When stably expressed in RBL-2H3 cells, the ITAM-containing fusion-construct IpLITR 2.6b/IpFcRγ-L stimulated phagocytic responses that were abrogated at suboptimal incubation temperatures and by pharmacological inhibitors of the classic signaling components of the mammalian FcR-dependent phagocytic pathway. Interestingly, the ITIM-containing receptor IpLITR 1.1b also induced phagocytosis through an actin-dependent mechanism, but this process was insensitive to the pharmacological inhibitors tested and remained functional at temperatures as low as 22°C. The IpLITR 1.1b also displayed a unique target-acquisition phenotype that consisted of complex, membranous protrusions, which captured targets in phagocytic cup-like structures but often failed to completely engulf targets. Taken together, these findings suggest that teleost immunoregulatory receptors that associate with ITAM-containing adaptors can engage conserved components of the phagocytic machinery to engulf extracellular targets akin to the classic FcR-mediated response in mammals. Alternatively, IpLITR 1.1b displays a stalled phagocytic phenotype that is likely dependent on the selective recruitment of the minimal molecular machinery required for target capture but results in incomplete target engulfment. Overall, this study demonstrates that IpLITRs can selectively engage distinct components of the phagocytic process and provides important new information regarding the target acquisition as well as internalization mechanisms involved in controlling phagocytic responses across vertebrates.
Coarse dynamics and fixed-point theorem
Authors: Fukaya Tomohiro 
Published: May 2015

AbstractWe study semigroup actions on a coarse space and the induced actions on the Higson corona from a dynamical point of view. Our main theorem states that if an action of an abelian semigroup on a proper coarse space satisfies certain conditions, the induced action has a fixed point in the Higson corona. As a corollary, we deduce a coarse version of Brouwer’s fixed-point theorem.
On the residue class distribution of the number of prime divisors of an integer
Authors: Coons Michael , Dahmen Sander R. 
Published: May 2015

AbstractLet Ω(n) denote the number of prime divisors of n counting multiplicity. One can show that for any positive integer m and all j = 0,1,…,m – 1, we havewith α = 1. Building on work of Kubota and Yoshida, we show that for m > 2 and any j = 0,1,…,m – 1, the error term is not o(xα) for any α < 1.
A cohomological Tamagawa number formula
Authors: Huber Annette , Kings Guido 
Published: May 2015

AbstractFor smooth linear group schemes over ℤ, we give a cohomological interpretation of the local Tamagawa measures as cohomological periods. This is in the spirit of the Tamagawa measures for motives defined by Bloch and Kato. We show that in the case of tori, the cohomological and the motivic Tamagawa measures coincide, which proves again the Bloch-Kato conjecture for motives associated to tori.
The rationality problem for norm one tori
Authors: Endo Shizuo 
Published: May 2015

AbstractWe consider the problem of whether the norm one torus defined by a finite separable field extension K/k is stably (or retract) rational over k. This has already been solved for the case where K/k is a Galois extension. In this paper, we solve the problem for the case where K/k is a non-Galois extension such that the Galois group of the Galois closure of K/k is nilpotent or metacyclic.
Normality of orbit closures in the enhanced nilpotent cone
Authors: Achar Pramod N. , Henderson Anthony , Jones Benjamin F. 
Published: May 2015

AbstractWe continue the study of the closures of GL(V)-orbits in the enhanced nilpotent cone V × N begun by the first two authors. We prove that each closure is an invariant-theoretic quotient of a suitably defined enhanced quiver variety. We conjecture, and prove in special cases, that these enhanced quiver varieties are normal complete intersections, implying that the enhanced nilpotent orbit closures are also normal.
Notes on boundedness of spectral multipliers on Hardy spaces associated to operators
Authors: Anh Bui The 
Published: May 2015

AbstractLet L be a nonnegative self-adjoint operator on L2 (X), where X is a space of homogeneous type. Assume that L generates an analytic semigroup e–tl whose kernel satisfies the standard Gaussian upper bounds. We prove that the spectral multiplier F(L) is bounded on for 0 < p < 1, the Hardy space associated to operator L, when F is a suitable function.
Stickelberger elements and Kolyvagin systems
Authors: Büyükboduk Kâzim 
Published: May 2015

AbstractIn this paper, we construct (many) Kolyvagin systems out of Stickelberger elements utilizing ideas borrowed from our previous work on Kolyvagin systems of Rubin-Stark elements. The applications of our approach are twofold. First, assuming Brumer’s conjecture, we prove results on the odd parts of the ideal class groups of CM fields which are abelian over a totally real field, and we deduce Iwasawa’s main conjecture for totally real fields (for totally odd characters). Although this portion of our results has already been established by Wiles unconditionally (and refined by Kurihara using an Euler system argument, when Wiles’s work is assumed), the approach here fits well in the general framework the author has developed elsewhere to understand Euler/Kolyvagin system machinery when the core Selmer rank is r > 1 (in the sense of Mazur and Rubin). As our second application, we establish a rather curious link between the Stickelberger elements and Rubin-Stark elements by using the main constructions of this article hand in hand with the “rigidity” of the collection of Kolyvagin systems proved by Mazur, Rubin, and the author.
Variation formulas for principal functions, II: Applications to variation for harmonic spans
Authors: Hamano Sachiko , Maitani Fumio , Yamaguchi Hiroshi 
Published: May 2015

AbstractA domain D ⊂ Cz admits the circular slit mapping P(z) for a, b ∈ D such that P(z) – 1/(z – a) is regular at a and P(b) = 0. We call p(z) = log|P(z)| the Li-principal function and α = log |P′(b)| the L1-constant, and similarly, the radial slit mapping Q(z) implies the L0-principal function q(z) and the L0-constant β. We call s = α – β the harmonic span for (D, a, b). We show the geometric meaning of s. Hamano showed the variation formula for the L1-constant α(t) for the moving domain D(t) in Cz with t ∈ B:= {t ∈ C: |t| < ρ}. We show the corresponding formula for the L0-constant β (t) for D(t) and combine these to prove that, if the total space D = ∪t∈B(t, D (t)) is pseudoconvex in B × Cz, then s(t) is subharmonic on B. As a direct application, we have the subharmonicity of log cosh d(t) on B, where d(t) is the Poincaré distance between a and b on D(t).
Ordinary varieties and the comparison between multiplier ideals and test ideals
Authors: Mustaţă Mircea , Srinivas Vasudevan 
Published: May 2015

AbstractWe consider the following conjecture: if X is a smooth and irreducible n-dimensional projective variety over a field k of characteristic zero, then there is a dense set of reductions Xs to positive characteristic such that the action of the Frobenius morphism on Hn(Xs, OXs) is bijective. There is another conjecture relating certain invariants of singularities in characteristic zero (the multiplier ideals) with invariants in positive characteristic (the test ideals). We prove that the former conjecture implies the latter one in the case of ambient nonsingular varieties.
Hownotto prove the Alon-Tarsi conjecture
Authors: Stones Douglas S. , Wanless Ian M. 
Published: May 2015

AbstractThe sign of a Latin square is −1 if it has an odd number of rows and columns that are odd permutations; otherwise, it is +1. LetLEnandLonbe, respectively, the number of Latin squares of ordernwith sign +1 and −1. The Alon-Tarsi conjecture asserts thatLEn≠Lonwhennis even. Drisko showed thatLEp+1≢Lop+1(modp3) for primep≥ 3 and asked if similar congruences hold for orders of the formpk+ 1,p+ 3, orpq+ 1. In this article we show that ift≤n, thenLEn+1≢L0n+1(modt3) only ift = nandnis an odd prime, thereby showing that Drisko’s method cannot be extended to encompass any of the three suggested cases. We also extend exact computation ton≤ 9, discuss asymptotics forLo/LE, and propose a generalization of the Alon-Tarsi conjecture.
q-Titchmarsh-Weyl theory: series expansion
Authors: Annaby M. H. , Mansour Z. S. , Soliman I. A. 
Published: May 2015

AbstractWe establish aq-Titchmarsh-Weyl theory for singularq-Sturm-Liouville problems. We defineq-limit-point andq-limit circle singularities, and we give sufficient conditions which guarantee that the singular point is in a limit-point case. The resolvent is constructed in terms of Green’s function of the problem. We derive the eigenfunction expansion in its series form. A detailed worked example involving Jacksonq-Bessel functions is given. This example leads to the completeness of a wide class ofq-cylindrical functions.
Hilbert-Samuel polynomials for the contravariant extension functor
Authors: Crabbe Andrew , Katz Daniel , Striuli Janet , Theodorescu Emanoil 
Published: May 2015

AbstractLet (R,m) be a local ring, and let M and N be finite R-modules. In this paper we give a formula for the degree of the polynomial giving the lengths of the modules ExtiR(M,N/mnN). A number of corollaries are given, and more general filtrations are also considered.
Module structure of cells in unequal-parameter Hecke algebras
Authors: Pietraho Thomas 
Published: May 2015

AbstractA conjecture of Bonnafé, Geck, Iancu, and Lam parametrizes Kazhdan-Lusztig left cells for unequal-parameter Hecke algebras in type Bn by families of standard domino tableaux of arbitrary rank. Relying on a family of properties outlined by Lusztig and the recent work of Bonnafé, we verify the conjecture and describe the structure of each cell as a module for the underlying Weyl group.
Motivic zeta functions for curve singularities
Authors: Moyano-Fernández J. J. , Zúňiga-Galindo W. A. 
Published: May 2015

AbstractLetXbe a complete, geometrically irreducible, singular, algebraic curve defined over a field of characteristicpbig enough. Given a local ringOp,x at a rational singular pointPofX, we attached a universal zeta function which is a rational function and admits a functional equation ifOp,x is Gorenstein. This universal zeta function specializes to other known zeta functions and Poincaré series attached to singular points of algebraic curves. In particular, for the local ring attached to a complex analytic function in two variables, our universal zeta function specializes to the generalized Poincaré series introduced by Campillo, Delgado, and Gusein-Zade.