Search results for "EOs"

An omics perspective to the molecular mechanisms of anticancer metallo-drugs in the computational microscope era

2017

Introduction: Metallo-drugs have attracted enormous interest for cancer treatment. The achievements of this drug-type are summarized by the success story of cisplatin. That being said, there have been many drawbacks with its clinical use, which prompted decades worth of research efforts to move towards safer and more effective agents, either containing platinum or different metals. Areas covered: In this review, the authors provide an atomistic picture of the molecular mechanisms involving selected metallo-drugs from structural and molecular simulation studies. They also provide an omics perspective, pointing out many unsettled aspects of the most relevant families of metallo-drugs at an ep…

CORENup: a combination of convolutional and recurrent deep neural networks for nucleosome positioning identification

2020

Abstract Background Nucleosomes wrap the DNA into the nucleus of the Eukaryote cell and regulate its transcription phase. Several studies indicate that nucleosomes are determined by the combined effects of several factors, including DNA sequence organization. Interestingly, the identification of nucleosomes on a genomic scale has been successfully performed by computational methods using DNA sequence as input data. Results In this work, we propose CORENup, a deep learning model for nucleosome identification. CORENup processes a DNA sequence as input using one-hot representation and combines in a parallel fashion a fully convolutional neural network and a recurrent layer. These two parallel …

Appendix C: Fundamentals of geostatistics

2008

Uncalibrated Reconstruction: An Adaptation to Structured Light Vision

2003

Abstract Euclidean reconstruction from two uncalibrated stereoscopic views is achievable from the knowledge of geometrical constraints about the environment. Unfortunately, these constraints may be quite difficult to obtain. In this paper, we propose an approach based on structured lighting, which has the advantage of providing geometrical constraints independent of the scene geometry. Moreover, the use of structured light provides a unique solution to the tricky correspondence problem present in stereovision. The projection matrices are first computed by using a canonical representation, and a projective reconstruction is performed. Then, several constraints are generated from the image an…

Systems chemical analytics: introduction to the challenges of chemical complexity analysis

2019

Understanding complex (bio/geo)systems is a pivotal challenge in modern sciences that fuels a constant development of modern analytical technology, finding innovative solutions to resolve and analyse. In this introductory paper to the Faraday Discussion "Challenges in the analysis of complex natural systems", we aim to present concepts of complexity, and complex chemistry in systems subjected to biotic and abiotic transformations, and introduce the analytical possibilities to disentangle chemical complexity into its elementary parts (i.e. compositional and structural resolution) as a global integrated approach termed systems chemical analytics.

Efficient correspondence problem-solving in 3-D shape reconstruction using a structured light system

2005

This paper deals with 3-D object reconstruction using a structured light system (SLS). The SLS is composed of a camera and a laser projector that illuminates spots on the scene of interest. The basic problem of such a system is the correspondence problem. If the correct correspondence between the imaged spots and the projected laser rays is found, the 3-D coordinates of the physical points associated with these spots can be calculated. We propose a method that automatically provides SLS configurations (i.e., the relative positions of both camera and laser projector with respect to the object to be analyzed) that allow performing an unambiguous and direct correspondence procedure. Experiment…

A one class KNN for signal identification: a biological case study

2009

The paper describes an application of a one class KNN to identify different signal patterns embedded in a noise structured background. The problem becomes harder whenever only one pattern is well-represented in the signal; in such cases, one class classifier techniques are more indicated. The classification phase is applied after a preprocessing phase based on a multi layer model (MLM) that provides preliminary signal segmentation in an interval feature space. The one class KNN has been tested on synthetic and real (Saccharomyces cerevisiae) microarray data in the specific problem of DNA nucleosome and linker regions identification. Results have shown, in both cases, a good recognition rate.

Stereoscopic 3D visualization of particle fields reconstructed from digital inline holograms

2010

Abstract Holography is a powerful tool as it codes information, e.g. on 3D positions in a particle field in a single 2D hologram. In digital holography, the holograms are recorded on a digital image sensor. It is a particular challenge to visualize a digital hologram's depth information, such that it can be understood intuitively while retaining the advantages of a numerical reconstruction. In this contribution it is suggested and demonstrated how a numerically constructed volume can be used to calculate stereoscopic views, which even in the case of non-diffuse illumination allow for an intuitive visualization of particles’ positions in 3D space.

MIPPIE: the mouse integrated protein–protein interaction reference

2020

Abstract Cells operate and react to environmental signals thanks to a complex network of protein–protein interactions (PPIs), the malfunction of which can severely disrupt cellular homeostasis. As a result, mapping and analyzing protein networks are key to advancing our understanding of biological processes and diseases. An invaluable part of these endeavors has been the house mouse (Mus musculus), the mammalian model organism par excellence, which has provided insights into human biology and disorders. The importance of investigating PPI networks in the context of mouse prompted us to develop the Mouse Integrated Protein–Protein Interaction rEference (MIPPIE). MIPPIE inherits a robust infr…

Preliminary results of the 2017 season in the Amazonian earthen structures known as geoglyphs.

2018

O trabalho realizado pela equipe de pesquisa multidisciplinar, liderada pela Universitat de Valencia Estudi General (UVEG) e a Universidade Federal do Acre (UFAC), de detalhamento da topografia, em especial na RESEX Chico Mendes, criou progresso significativo no conhecimento das estruturas de terra construídas na paisagem amazônica, conhecidas popularmente como geoglifos, no que se refere a aplicação de topografia de alta precisão para algumas das estruturas, compreensão geral fenômeno e aplicação de uma nova estratégia de pesquisa, com o auxílio de ferramentas como o Google Earth, Google Maps, GPX, OpenStreetMap e Lidar. Ainda há muito trabalho de campo a ser feito na Amazônia Ocidental, n…