Search results for "Map"

Direct infusion mass spectrometry as a fingerprint of protein-binding media used in works of art

2005

A direct infusion mass spectrometry method for the characterization of proteinaceous glues from binding media used in pictorial works of art prior to conservation or restoration treatment is proposed. Amino acids are released by acid hydrolysis and dissolved in a mixture of acidic water and ethanol. This mixture is directly infused into a mass spectrometer without any derivatization. The mass spectrometer is operated in positive ion electrospray mode (ESI-MS) to yield [M+H]+ ions for the amino acids. Relative amounts of each amino acid are calculated for each protein (beef and porcine gelatines, albumin, casein and egg). The analyzed proteins were satisfactorily distinguished. The method is…

Preface: The neurobiology of syntax.

2012

Alignment-Free Sequence Comparison over Hadoop for Computational Biology

2015

Sequence comparison i.e., The assessment of how similar two biological sequences are to each other, is a fundamental and routine task in Computational Biology and Bioinformatics. Classically, alignment methods are the de facto standard for such an assessment. In fact, considerable research efforts for the development of efficient algorithms, both on classic and parallel architectures, has been carried out in the past 50 years. Due to the growing amount of sequence data being produced, a new class of methods has emerged: Alignment-free methods. Research in this ares has become very intense in the past few years, stimulated by the advent of Next Generation Sequencing technologies, since those…

p38 MAPK activation is required for Paracentrotus lividus skeletogenesis

2008

We investigated the p38 MAPK role during sea urchin, Paracentrotus lividus, development. We found that at the morula stage, before the onset of skeletogenesis, p38 MAPK shows a peak of activity, and we tested whether p38 MAPK activity has any effect on skeletogenesis. By immunohistochemistry on whole-mount embryos we show the preferential localization of the active p38 form both in the presumptive PMCs and bilateral spiculo- genesis centers in control embryos, and in the radialized supernumerary spiculogenesis centers induced by NiCl2 treatment. By using SB203580, a p38 MAPK specific inhibitor, we show that p38 activity is required both for the initial triradiate spicule rudiments formation…

Stable maps from surfaces to the plane with prescribed branching data

2007

Abstract We consider the problem of constructing stable maps from surfaces to the plane with branch set a given set of curves immersed (except possibly with cusps) in the plane. Various constructions are used (1) piecing together regions immersed in the plane (2) modifying an existing stable map by a sequence of codimension one transitions (swallowtails etc) or by surgeries. In (1) the way the regions are pieced together is described by a bipartite graph (an edge C* corresponds to a branch curve C with the vertices of C* corresponding to the two regions containing C). We show that any bipartite graph may be realized by a stable map and we consider the question of realizing graphs by fold ma…

On the geometry of the characteristic class of a star product on a symplectic manifold

2001

The characteristic class of a star product on a symplectic manifold appears as the class of a deformation of a given symplectic connection, as described by Fedosov. In contrast, one usually thinks of the characteristic class of a star product as the class of a deformation of the Poisson structure (as in Kontsevich's work). In this paper, we present, in the symplectic framework, a natural procedure for constructing a star product by directly quantizing a deformation of the symplectic structure. Basically, in Fedosov's recursive formula for the star product with zero characteristic class, we replace the symplectic structure by one of its formal deformations in the parameter $\hbar$. We then s…

CROSSMAPPER: estimating cross-mapping rates and optimizing experimental design in multi-species sequencing studies

2020

Motivation Numerous sequencing studies, including transcriptomics of host-pathogen systems, sequencing of hybrid genomes, xenografts, mixed species systems, metagenomics and meta-transcriptomics, involve samples containing genetic material from divergent organisms. A crucial step in these studies is identifying from which organism each sequencing read originated, and the experimental design should be directed to minimize biases caused by cross-mapping of reads to incorrect source genomes. Additionally, pooling of sufficiently different genetic material into a single sequencing library could significantly reduce experimental costs but requires careful planning and assessment of the impact of…

The asymptotic covariance matrix of the Oja median

2003

The Oja median, based on a sample of multivariate data, is an affine equivariant estimate of the centre of the distribution. It reduces to the sample median in one dimension and has several nice robustness and efficiency properties. We develop different representations of its asymptotic variance and discuss ways to estimate this quantity. We consider symmetric multivariate models and also the more narrow elliptical models. A small simulation study is included to compare finite sample results to the asymptotic formulas.

Algorithms and tools for protein-protein interaction networks clustering, with a special focus on population-based stochastic methods

2014

Abstract Motivation: Protein–protein interaction (PPI) networks are powerful models to represent the pairwise protein interactions of the organisms. Clustering PPI networks can be useful for isolating groups of interacting proteins that participate in the same biological processes or that perform together specific biological functions. Evolutionary orthologies can be inferred this way, as well as functions and properties of yet uncharacterized proteins. Results: We present an overview of the main state-of-the-art clustering methods that have been applied to PPI networks over the past decade. We distinguish five specific categories of approaches, describe and compare their main features and …

(φ, ψ)-weak contractions in intuitionistic fuzzy metric spaces

2014

The purpose of this paper is to extend the notion of (phi,psi)-weak contraction to intuitionistic fuzzy metric spaces, by using an altering distance function. We obtain common fixed point results in intuitionistic fuzzy metric spaces, which generalize several known results from the literature.