CFD Modelling of Micromixing in a T-mixer with Square Bends

International audienceCFD simulations are performed to study the micro-mixing in a T-mixer with square bends by using the Villermaux-Dushman reaction. The calculated segregation indices are compared with previously published data and it is shown that whilst the trend is capture the simulation overpredict the extent of miccromixing. This paper provides guidance on the computational requirements needed to obtain accurate results in such laminar flows and shows the complex species fields that develop within the reactor

Characterization of micromixing in a Continuous Oscillatory Baffled Reactor

International audienceMicromixing is the limiting step in the progress of fast reactions and fast crystallization processes. Micromixing performance of a Nitech© glass COBR has been characterized using the competing parallel iodide-iodate test reactions. Macromixing length was also qualitatively determined by visualization of a tracer. The results show that an increase in the amplitude to baffle space ratio and a decrease of oscillation frequency improves mixing performance

UniProtKB amid the turmoil of plant proteomics research.

The UniProt KnowledgeBase (UniProtKB) provides a single, centralized, authoritative resource for protein sequences and functional information. The majority of its records is based on automatic translation of coding sequences (CDS) provided by submitters at the time of initial deposition to the nucleotide sequence databases (INSDC). This article will give a general overview of the current situation, with some specific illustrations extracted from our annotation of Arabidopsis and rice proteomes. More and more frequently, only the raw sequence of a complete genome is deposited to the nucleotide sequence databases and the gene model predictions and annotations are kept in separate, specialized model organism databases (MODs). In order to be able to provide the complete proteome of model organisms, UniProtKB had to implement pipelines for import of protein sequences from Ensembl and EnsemblGenomes. A single genome can be the target of several unrelated sequencing projects and the final assembly and gene model predictions may diverge quite significantly. In addition, several cultivars of the same species are often sequenced - 1001 Arabidopsis cultivars are currently under way - and the resulting proteomes are far from being identical. Therefore, one challenge for UniProtKB is to store and organize these data in a convenient way and to clearly defined reference proteomes that should be made available to users. Manual annotation is one of the landmarks of the Swiss-Prot section of UniProtKB. Besides adding functional annotation, curators are checking, and often correcting, gene model predictions. For plants, this task is limited to Arabidopsis thaliana and Oryza sativa subsp. japonica. Proteomics data providing experimental evidences confirming the existence of proteins or identifying sequence features such as post-translational modifications are also imported into UniProtKB records and the knowledgebase is cross-referenced to numerous proteomics resource

ROBUST TECHNIQUES FOR BUILDING FOOTPRINT EXTRACTION IN AERIAL LASER SCANNING 3D POINT CLOUDS

The building footprint is crucial for a volumetric 3D representation of a building that is applied in urban planning, 3D city modeling, cadastral and topographic map generation. Aerial laser scanning (ALS) has been recognized as the most suitable means of large-scale 3D point cloud data (PCD) acquisition. PCD can produce geometric detail of a scanned surface. However, it is almost impossible to get point clouds without noise and outliers. Besides, data incompleteness and occlusions are two common phenomena for PCD. Most of the existing methods for building footprint extraction employ classification, segmentation, voting techniques (e.g., Hough-Transform or RANSAC), or Principal Component Analysis (PCA) based methods. It is known that classical PCA is highly sensitive to outliers, even RANSAC which is known as a robust technique for shape detection is not free from outlier effects. This paper presents a novel algorithm that employs MCMD (maximum consistency within minimum distance), MSAC (a robust variant of RANSAC) and a robust regression to extract reliable building footprints in the presence of outliers, missing points and irregular data distributions. The algorithm is successfully demonstrated through two sets of ALS PCD

Impact of thixotropy on flow patterns induced in a stirred tank : numerical and experimental studies

Agitation of a thixotropic shear-thinning fluid exhibiting a yield stress is investigated both experimentally and via simulations. Steady-state experiments are conducted at three impeller rotation rates (1, 2 and 8 s−1) for a tank stirred with an axial-impeller and flow-field measurements are made using particle image velocimetry (PIV) measurements. Threedimensional numerical simulations are also performed using the commercial CFD code ANSYS CFX10.0. The viscosity of the suspension is determined experimentally and is modelled using two shear-dependant laws, one of which takes into account the flow instabilities of such fluids at low shear rates. At the highest impeller speed, the flow exhibits the familiar outward pumping action associated with axial-flow impellers. However, as the impeller speed decreases, a cavern is formed around the impeller, the flow generated in the vicinity of the agitator reorganizes and its pumping capacity vanishes. An unusual flow pattern, where the radial velocity dominates, is observed experimentally at the lowest stirring speed. It is found to result from wall slip effects. Using blades with rough surfaces prevents this peculiar behaviour and mainly resolves the discrepancies between the experimental and computational results

Psip1/Ledgf p75 restrains<i>Hox</i>gene expression by recruiting both trithorax and polycomb group proteins

Trithorax and polycomb group proteins are generally thought to antagonize one another. The trithorax familymember MLL (myeloid/lymphoid or mixedlineage leukemia) is presumed to activate Hox expression, counteracting polycomb-mediated repression. PC4 and SF2 interacting protein 1 (PSIP1)/p75, also known as LEDGF, whose PWWP domain binds to H3K36me3, interacts with MLL and tethers MLL fusion proteins toHOXA9 in leukaemias. Here we show, unexpectedly, that Psip1/p75 regulates homeotic genes by recruiting not only MLL complexes, but also the polycomb group protein Bmi1. In Psip1-/- cells binding of Mll1/2, Bmi1 and the co-repressor Ctbp1 at Hox loci are all abrogated and Hoxa and Hoxd mRNA expression increased. Our data not only reveal a potential mechanism of action for Psip1 in the regulation of Hox genes but also suggest an unexpected interplay between proteins usually considered as transcriptional activators and repressors. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research

Compliance with mandatory standards in agriculture : a comparative approach of the EU vis-à-vis the United States, Canada and New Zealand

This report presents some of the interim results of the project 'Facilitating the CAP reform: Compliance and competitiveness of European agriculture'. It summarises and integrates the implementation of cross compliance measures in seven EU countries (France, Germany, Italy, Netherlands, United Kingdom, Spain and Poland), with a particular focus on the degree of compliance and the costs of compliance. Also, the implementation of similar measures is examined in three non-EU countries (Canada, United States and New Zealand)

Exploring the synergies between cross compliance and certification schemes

This report presents some of the interim results of the project 'Facilitating the CAP reform: Compliance and competitiveness of European agriculture'. It examines the similarities and differences between mandatory cross compliance standards and those set by voluntary certification schemes. There is a potential synergy between cross compliance and certification schemes, not least because both approaches set minimum standards and enforce those standards through inspection systems. Although there are some strong limitations, there is sufficient overlap in the standards set and in approaches to control to warrant further investigation of the potential for the harmonisation of standards and collaborative approaches to control

Term Matrix: a novel Gene Ontology annotation quality control system based on ontology term co-annotation patterns.

Biological processes are accomplished by the coordinated action of gene products. Gene products often participate in multiple processes, and can therefore be annotated to multiple Gene Ontology (GO) terms. Nevertheless, processes that are functionally, temporally and/or spatially distant may have few gene products in common, and co-annotation to unrelated processes probably reflects errors in literature curation, ontology structure or automated annotation pipelines. We have developed an annotation quality control workflow that uses rules based on mutually exclusive processes to detect annotation errors, based on and validated by case studies including the three we present here: fission yeast protein-coding gene annotations over time; annotations for cohesin complex subunits in human and model species; and annotations using a selected set of GO biological process terms in human and five model species. For each case study, we reviewed available GO annotations, identified pairs of biological processes which are unlikely to be correctly co-annotated to the same gene products (e.g. amino acid metabolism and cytokinesis), and traced erroneous annotations to their sources. To date we have generated 107 quality control rules, and corrected 289 manual annotations in eukaryotes and over 52 700 automatically propagated annotations across all taxa

Swift follow-up observations of candidate gravitational-wave transient events

We present the first multi-wavelength follow-up observations of two candidate gravitational-wave (GW) transient events recorded by LIGO and Virgo in their 2009-2010 science run. The events were selected with low latency by the network of GW detectors and their candidate sky locations were observed by the Swift observatory. Image transient detection was used to analyze the collected electromagnetic data, which were found to be consistent with background. Off-line analysis of the GW data alone has also established that the selected GW events show no evidence of an astrophysical origin; one of them is consistent with background and the other one was a test, part of a "blind injection challenge". With this work we demonstrate the feasibility of rapid follow-ups of GW transients and establish the sensitivity improvement joint electromagnetic and GW observations could bring. This is a first step toward an electromagnetic follow-up program in the regime of routine detections with the advanced GW instruments expected within this decade. In that regime multi-wavelength observations will play a significant role in completing the astrophysical identification of GW sources. We present the methods and results from this first combined analysis and discuss its implications in terms of sensitivity for the present and future instruments.Comment: Submitted for publication 2012 May 25, accepted 2012 October 25, published 2012 November 21, in ApJS, 203, 28 ( http://stacks.iop.org/0067-0049/203/28 ); 14 pages, 3 figures, 6 tables; LIGO-P1100038; Science summary at http://www.ligo.org/science/Publication-S6LVSwift/index.php ; Public access area to figures, tables at https://dcc.ligo.org/cgi-bin/DocDB/ShowDocument?docid=p110003