Why my photos look sideways or upside down? Detecting Canonical Orientation of Images using Convolutional Neural Networks

Image orientation detection requires high-level scene understanding. Humans use object recognition and contextual scene information to correctly orient images. In literature, the problem of image orientation detection is mostly confronted by using low-level vision features, while some approaches incorporate few easily detectable semantic cues to gain minor improvements. The vast amount of semantic content in images makes orientation detection challenging, and therefore there is a large semantic gap between existing methods and human behavior. Also, existing methods in literature report highly discrepant detection rates, which is mainly due to large differences in datasets and limited variety of test images used for evaluation. In this work, for the first time, we leverage the power of deep learning and adapt pre-trained convolutional neural networks using largest training dataset to-date for the image orientation detection task. An extensive evaluation of our model on different public datasets shows that it remarkably generalizes to correctly orient a large set of unconstrained images; it also significantly outperforms the state-of-the-art and achieves accuracy very close to that of humans

Family of solvable generalized random-matrix ensembles with unitary symmetry

We construct a very general family of characteristic functions describing Random Matrix Ensembles (RME) having a global unitary invariance, and containing an arbitrary, one-variable probability measure which we characterize by a `spread function'. Various choices of the spread function lead to a variety of possible generalized RMEs, which show deviations from the well-known Gaussian RME originally proposed by Wigner. We obtain the correlation functions of such generalized ensembles exactly, and show examples of how particular choices of the spread function can describe ensembles with arbitrary eigenvalue densities as well as critical ensembles with multifractality.Comment: 4 pages, to be published in Phys. Rev. E, Rapid Com

Scalar Field Quantization Without Divergences In All Spacetime Dimensions

Covariant, self-interacting scalar quantum field theories admit solutions for low enough spacetime dimensions, but when additional divergences appear in higher dimensions, the traditional approach leads to results, such as triviality, that are less than satisfactory. Guided by idealized but soluble {\it non}renormalizable models, a nontraditional proposal for the quantization of covariant scalar field theories is advanced, which achieves a term-by-term, divergence-free, perturbation analysis of interacting models expanded about a suitable pseudofree theory, which differs from a free theory by an O(\hbar^2) counterterm. These positive features are realized within a functional integral formulation by a local, nonclassical, counterterm that effectively transforms parameter changes in the action from generating mutually singular measures, which are the basis for divergences, to equivalent measures, thereby removing all divergences. The use of an alternative model about which to perturb is already supported by properties of the classical theory, and is allowed by the inherent ambiguity in the quantization process itself. This procedure not only provides acceptable solutions for models for which no acceptable, faithful solution currently exists, e.g., \phi^4_n, for spacetime dimensions n\ge4, but offers a new, divergence-free solution, for less-singular models as well, e.g., \phi^4_n, for n=2,3. Our analysis implies similar properties for multicomponent scalar models, such as those associated with the Higgs model.Comment: 45 pages, has relevance for the Higgs model, review and updated analysis, version accepted for publicatio

Ultrafast Structural Dynamics of BlsA, a Photoreceptor from the Pathogenic Bacterium Acinetobacter baumannii

Acinetobacter baumannii is an important human pathogen that can form biofilms and persist under harsh environmental conditions. Biofilm formation and virulence are modulated by blue light, which is thought to be regulated by a BLUF protein, BlsA. To understand the molecular mechanism of light sensing, we have used steady-state and ultrafast vibrational spectroscopy to compare the photoactivation mechanism of BlsA to the BLUF photosensor AppA from Rhodobacter sphaeroides. Although similar photocycles are observed, vibrational data together with homology modeling identify significant differences in the β5 strand in BlsA caused by photoactivation, which are proposed to be directly linked to downstream signaling

BLUF Domain Function Does Not Require a Metastable Radical Intermediate State

BLUF (blue light using flavin) domain proteins are an important family of blue light-sensing proteins which control a wide variety of functions in cells. The primary light-activated step in the BLUF domain is not yet established. A number of experimental and theoretical studies points to a role for photoinduced electron transfer (PET) between a highly conserved tyrosine and the flavin chromophore to form a radical intermediate state. Here we investigate the role of PET in three different BLUF proteins, using ultrafast broadband transient infrared spectroscopy. We characterize and identify infrared active marker modes for excited and ground state species and use them to record photochemical dynamics in the proteins. We also generate mutants which unambiguously show PET and, through isotope labeling of the protein and the chromophore, are able to assign modes characteristic of both flavin and protein radical states. We find that these radical intermediates are not observed in two of the three BLUF domains studied, casting doubt on the importance of the formation of a population of radical intermediates in the BLUF photocycle. Further, unnatural amino acid mutagenesis is used to replace the conserved tyrosine with fluorotyrosines, thus modifying the driving force for the proposed electron transfer reaction; the rate changes observed are also not consistent with a PET mechanism. Thus, while intermediates of PET reactions can be observed in BLUF proteins they are not correlated with photoactivity, suggesting that radical intermediates are not central to their operation. Alternative nonradical pathways including a keto–enol tautomerization induced by electronic excitation of the flavin ring are considered

A Grassmann integral equation

The present study introduces and investigates a new type of equation which is called Grassmann integral equation in analogy to integral equations studied in real analysis. A Grassmann integral equation is an equation which involves Grassmann integrations and which is to be obeyed by an unknown function over a (finite-dimensional) Grassmann algebra G_m. A particular type of Grassmann integral equations is explicitly studied for certain low-dimensional Grassmann algebras. The choice of the equation under investigation is motivated by the effective action formalism of (lattice) quantum field theory. In a very general setting, for the Grassmann algebras G_2n, n = 2,3,4, the finite-dimensional analogues of the generating functionals of the Green functions are worked out explicitly by solving a coupled system of nonlinear matrix equations. Finally, by imposing the condition G[{\bar\Psi},{\Psi}] = G_0[{\lambda\bar\Psi}, {\lambda\Psi}] + const., 0<\lambda\in R (\bar\Psi_k, \Psi_k, k=1,...,n, are the generators of the Grassmann algebra G_2n), between the finite-dimensional analogues G_0 and G of the (``classical'') action and effective action functionals, respectively, a special Grassmann integral equation is being established and solved which also is equivalent to a coupled system of nonlinear matrix equations. If \lambda \not= 1, solutions to this Grassmann integral equation exist for n=2 (and consequently, also for any even value of n, specifically, for n=4) but not for n=3. If \lambda=1, the considered Grassmann integral equation has always a solution which corresponds to a Gaussian integral, but remarkably in the case n=4 a further solution is found which corresponds to a non-Gaussian integral. The investigation sheds light on the structures to be met for Grassmann algebras G_2n with arbitrarily chosen n.Comment: 58 pages LaTeX (v2: mainly, minor updates and corrections to the reference section; v3: references [4], [17]-[21], [39], [46], [49]-[54], [61], [64], [139] added

Integrated random processes exhibiting long tails, finite moments and 1/f spectra

A dynamical model based on a continuous addition of colored shot noises is presented. The resulting process is colored and non-Gaussian. A general expression for the characteristic function of the process is obtained, which, after a scaling assumption, takes on a form that is the basis of the results derived in the rest of the paper. One of these is an expansion for the cumulants, which are all finite, subject to mild conditions on the functions defining the process. This is in contrast with the Levy distribution -which can be obtained from our model in certain limits- which has no finite moments. The evaluation of the power spectrum and the form of the probability density function in the tails of the distribution shows that the model exhibits a 1/f spectrum and long tails in a natural way. A careful analysis of the characteristic function shows that it may be separated into a part representing a Levy processes together with another part representing the deviation of our model from the Levy process. This allows our process to be viewed as a generalization of the Levy process which has finite moments.Comment: Revtex (aps), 15 pages, no figures. Submitted to Phys. Rev.

Modeling Proactive Decisions to Manage Pneumonia Epizootics in Bighorn Sheep

Pneumonia epizootics in bighorn sheep (Ovis canadensis) are a major challenge for wildlife agencies due to the complexity of the disease, long-term impacts, and lack of tools to manage risk. We developed a decision model to facilitate proactive management of pneumonia epizootics in bighorn sheep in Montana. Our decision model integrates a risk model to predict probability of pneumonia epizootics based on identified risk factors. It uses a structured decision making (SDM) approach to analyze potential decisions based on predictions from the risk model, herd-specific management objectives, and predicted consequences and trade-offs. We demonstrated our model’s use with an analysis of representative herds and analyzed the recommended decisions to understand them clearly. We learned that proactive management for each herd was expected to outperform in meeting multiple, competing management objectives compared to ongoing status quo management. Based on sensitivity analyses, we also learned that the recommended decisions were relatively robust with limited sensitivity to variations in model inputs and uncertainties; we expect this to be the case in future analyses as well. Our decision model addressed the challenges of uncertainty, risk tolerance, and the multi-objective nature of management of bighorn sheep while providing a consistent, transparent, and deliberative approach for making decisions for each herd. It is a unique tool for managing pneumonia epizootics using an accessible framework for biologists and managers. Our work also provides a case study for developing similar SDM-based decision models, particularly for other wildlife diseases, to address challenges of making complex decisions

Development and characterization of synthetic antibodies binding to the cystic fibrosis conductance regulator

Cystic fibrosis transmembrane conductance regulator (CFTR) is a chloride channel in the apical surface of epithelial cells in the airway and gastrointestinal tract, and mutation of CFTR is the underlying cause of cystic fibrosis. However, the precise molecular details of the structure and function of CFTR in native and disease states remains elusive and cystic fibrosis researchers are hindered by a lack of high specificity, high affinity binding reagents for use in structural and biological studies. Here, we describe a panel of synthetic antigen-binding fragments (Fabs) isolated from a phage-displayed library that are specific for intracellular domains of CFTR that include the nucleotide-binding domains (NBD1 and NBD2), the R-region, and the regulatory insertion loop of NBD1. Binding assays performed under conditions that promote the native fold of the protein demonstrated that all Fabs recognized full-length CFTR. However, only the NBD1-specific Fab recognized denatured CFTR by western blot, suggesting a conformational epitope requirement for the other Fabs. Surface plasmon resonance experiments showed that the R-region Fab binds with high affinity to both the phosphorylated and unphosphorylated R-region. In addition, NMR analysis of bound versus unbound R-region revealed a distinct conformational effect upon Fab binding. We further defined residues involved with antibody recognition using an overlapping peptide array. In summary, we describe methodology complementary to previous hybridoma-based efforts to develop antibody reagents to CFTR, and introduce a synthetic antibody panel to aid structural and biological studies

Distribution and Abundance of the Kittlitz\u27s Murrelet \u3ci\u3eBrachyramphus brevirostris\u3c/i\u3e in Selected Areas of Southeastern Alaska

We conducted boat-based surveys for the Kittlitz’s Murrelet Brachyramphus brevirostris during the breeding season in southeastern Alaska from 2002 to 2009. We completed a single survey in seven areas and multiple annual surveys in three areas. Although surveys spanned a broad geographic area, from LeConte Bay in the south to the Lost Coast in the north (~655 km linear distance), roughly 79% of the regional population of Kittlitz’s Murrelet was found in and between Icy and Yakutat bays (~95 km linear distance). The congeneric Marbled Murrelet B. marmoratus outnumbered the Kittlitz’s Murrelet in all areas surveyed except Icy Bay; in fact, Kittlitz’s Murrelet abundance constituted a relatively small proportion (7%) of the total Brachyramphus murrelet abundance in our survey areas. In areas for which there are multiple years of survey data, Kittlitz’s Murrelet abundance varied considerably, whereas Marbled Murrelet abundance was comparatively stable during the same time period. Since the southern distribution of this species has likely narrowed over the last 50 years, and the distribution of the Kittlitz’s Murrelet appears to be restricted to glacially influenced marine waters in southeastern Alaska, we expect that any future changes in glacial extent will likely affect this species and its long-term persistence in the region