5,308 research outputs found
Validation of Kalman Filter alignment algorithm with cosmic-ray data using a CMS silicon strip tracker endcap
A Kalman Filter alignment algorithm has been applied to cosmic-ray data. We
discuss the alignment algorithm and an experiment-independent implementation
including outlier rejection and treatment of weakly determined parameters.
Using this implementation, the algorithm has been applied to data recorded with
one CMS silicon tracker endcap. Results are compared to both photogrammetry
measurements and data obtained from a dedicated hardware alignment system, and
good agreement is observed.Comment: 11 pages, 8 figures. CMS NOTE-2010/00
A NLP Pipeline for the Automatic Extraction of a Complete Microorganismâs Picture from Microbiological Notes
The Italian âIstituto Superiore di SanitĂ â (ISS) identifies hospital-acquired infections (HAIs) as the most frequent and serious complications in healthcare. HAIs constitute a real health emergency and, therefore, require decisive action from both local and national health organizations. Information about the causative microorganisms of HAIs is obtained from the results of microbiological cultures of specimens collected from infected body sites, but microorganismsâ names are sometimes reported only in the notes field of the culture reports. The objective of our work was to build a NLP-based pipeline for the automatic information extraction from the notes of microbiological culture reports. We analyzed a sample composed of 499 texts of notes extracted from 1 month of anonymized laboratory referral. First, our system filtered texts in order to remove nonmeaningful sentences. Thereafter, it correctly extracted all the microorganismsâ names according to the expertâs labels and linked them to a set of very important metadata such as the translations into national/international vocabularies and standard definitions. As the major result of our pipeline, the system extracts a complete picture of the microorganism
Activating RNAs associate with Mediator to enhance chromatin architecture and transcription
Recent advances in genomic research have revealed the existence of a large number of transcripts devoid of protein-coding potential in multiple organisms. Although the functional role for long non-coding RNAs (lncRNAs) has been best defined in epigenetic phenomena such as X-chromosome inactivation and imprinting, different classes of lncRNAs may have varied biological functions. We and others have identified a class of lncRNAs, termed ncRNA-activating (ncRNA-a), that function to activate their neighbouring genes using a cis-mediated mechanism. To define the precise mode by which such enhancer-like RNAs function, we depleted factors with known roles in transcriptional activation and assessed their role in RNA-dependent activation. Here we report that depletion of the components of the co-activator complex, Mediator, specifically and potently diminished the ncRNA-induced activation of transcription in a heterologous reporter assay using human HEK293 cells. In vivo, Mediator is recruited to ncRNA-a target genes and regulates their expression. We show that ncRNA-a interact with Mediator to regulate its chromatin localization and kinase activity towards histone H3 serine 10. The Mediator complex harbouring disease- displays diminished ability to associate with activating ncRNAs. Chromosome conformation capture confirmed the presence of DNA looping between the ncRNA-a loci and its targets. Importantly, depletion of Mediator subunits or ncRNA-a reduced the chromatin looping between the two loci. Our results identify the human Mediator complex as the transducer of activating ncRNAs and highlight the importance of Mediator and activating ncRNA association in human disease
Identification of Pex13p a peroxisomal membrane receptor for the PTS1 recognition factor.
Giant peroxisomes in oleic acid-induced Saccharomyces cerevisiae lacking the peroxisomal membrane protein Pmp27p.
The single transmembrane segment of gp210 is sufficient for sorting to the pore membrane domain of the nuclear envelope.
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