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Mining clinical attributes of genomic variants through assisted literature curation in Egas
The veritable deluge of biological data over recent years has led to the establishment of a considerable number of knowledge resources that compile curated information extracted from the literature and store it in structured form, facilitating its use and exploitation. In this article, we focus on the curation of inherited genetic variants and associated clinical attributes, such as zygosity, penetrance or inheritance mode, and describe the use of Egas for this task. Egas is a web-based platform for text-mining assisted literature curation that focuses on usability through modern design solutions and simple user interactio...
Source: Database : The Journal of Biological Databases and Curation - June 6, 2016 Category: Databases & Libraries Authors: Matos, S., Campos, D., Pinho, R., Silva, R. M., Mort, M., Cooper, D. N., Oliveira, J. L. Tags: Original Article Source Type: research

Feinstein-Burr: The Bill That Bans Your Browser
Last week, I criticized the confused rhetorical framework that the Feinstein-Burr encryption backdoor proposal tries to impose on the ongoing Crypto Wars 2.0 debate.  In this post, I want to try to explain why technical experts have so overwhelmingly and vehemently condemned the substance of the proposal. The first thing to note is how extraordinarily sweeping the bill is in scope.  Its mandate applies to: device manufacturers, software manufacturers, electronic communication services, remote communication services, providers of wire or electronic communication services, providers of remote communication services, or any...
Source: Cato-at-liberty - April 29, 2016 Category: American Health Authors: Julian Sanchez Source Type: blogs

Characterizing rate limiting steps in transcription from RNA production times in live cells
Motivation: Single-molecule measurements of live Escherichia coli transcription dynamics suggest that this process ranges from sub- to super-Poissonian, depending on the conditions and on the promoter. For its accurate quantification, we propose a model that accommodates all these settings, and statistical methods to estimate the model parameters and to select the relevant components. Results: The new methodology has improved accuracy and avoids overestimating the transcription rate due to finite measurement time, by exploiting unobserved data and by accounting for the effects of discrete sampling. First, we use Monte Carl...
Source: Bioinformatics - April 26, 2016 Category: Bioinformatics Authors: Häkkinen, A., Ribeiro, A. S. Tags: GENE EXPRESSION Source Type: research

Integrating, summarizing and visualizing GWAS-hits and human diversity with DANCE (Disease-ANCEstry networks)
Motivation: The 1000 Genomes Project (1KGP) and thousands of Genome-Wide Association Studies (GWAS) performed during the last years have generated an enormous amount of information that needs to be integrated to better understand the genetic architecture of complex diseases in different populations. This integration is important in areas such as genetics, epidemiology, anthropology, as well as admixture mapping design and GWAS-replications. Network-based approaches that explore the genetic bases of human diseases and traits have not yet incorporated information on genetic diversity among human populations. Results: We prop...
Source: Bioinformatics - April 6, 2016 Category: Bioinformatics Authors: Araujo, G. S., Lima, L. H. C., Schneider, S., Leal, T. P., da Silva, A. P. C., Vaz de Melo, P. O. S., Tarazona-Santos, E., Scliar, M. O., Rodrigues, M. R. Tags: GENETICS AND POPULATION ANALYSIS Source Type: research

SciELO suggester: An intelligent support tool for cataloging library resources
Publication date: Available online 21 February 2016 Source:Library & Information Science Research Author(s): Natalia L. Mitzig, Mónica S. Mitzig, Fernando A. Martínez, Ricardo A. Piriz, Víctor M. Ferracutti, María Paula González, Ana G. Maguitman Existing cataloging interfaces are designed to reduce the bottleneck of creating, editing, and refining bibliographic records by offering a convenient framework for data entry. However, the cataloger still has to deal with the difficult task of deciding what information to include. The SciELO Suggester system is an innovative tool developed to overcome certai...
Source: Library and Information Science Research - February 23, 2016 Category: Databases & Libraries Source Type: research

Xtant™ Medical And Montana State University Develop Custom 3D Printer For Prototyping Reconstructive Implants
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Source: Orthogate - Latest News - November 30, 2015 Category: Orthopaedics Tags: Featured Industry News Source Type: news

Charting Our Path With a Web Literacy Map
This article features the “Web Literacy Map”, an open source tool from Mozilla's Webmaker project. The map focuses on Exploring (Navigating the Web); Building (creating for the Web), and Connecting (Participating on the Web). Readers are invited to use resources, provide feedback on the map, and become a member of the literacy map community.
Source: Reading Teacher - April 16, 2015 Category: Child Development Authors: Bridget Dalton Tags: Integrating Technology Source Type: research

Helmsley awards $6.4M to Sage Bionetworks, Hypothes.is Project, Mozilla Foundation
(The Helmsley Charitable Trust) Helmsley Charitable Trust announces grants, which together total more than $6.4 million, to three pioneering nonprofit organizations that promote more open, accurate and collaborative science: Sage Bionetworks, the Hypothes.is Project and the Mozilla Foundation. The awards are the first made through the Trust's Biomedical Research Infrastructure Program, a new grantmaking program dedicated to funding novel collaborative research platforms, data management tools and training initiatives that will improve research outcomes and speed biomedical discoveries.
Source: EurekAlert! - Social and Behavioral Science - January 12, 2015 Category: Global & Universal Source Type: news

Virtual Reality Comes to the Web—Maybe for Real This Time
Backed by Google and Mozilla, VR-enabled browsers and gear could soon immerse Web users in 3-D worlds -- Read more on ScientificAmerican.com
Source: Scientific American - Official RSS Feed - December 29, 2014 Category: Science Tags: Mind & Brain Technology Communications Computing Consumer Electronics Source Type: research

Estimation of GFP-tagged RNA numbers from temporal fluorescence intensity data
We present a novel method for automatically estimating RNA numbers and production intervals from temporal data of cell fluorescence intensities that reduces uncertainty by exploiting temporal information. We also derive a robust variant, more resistant to outliers caused e.g. by RNAs moving out of focus. Using Monte Carlo simulations, we show that the quantification of RNA numbers and production intervals is generally improved compared with previous methods. Finally, we analyze data from live Escherichia coli and show statistically significant differences to previous methods. The new methods can be used to quantify numbers...
Source: Bioinformatics - December 18, 2014 Category: Bioinformatics Authors: Hakkinen, A., Ribeiro, A. S. Tags: GENE EXPRESSION Source Type: research

Welcome To The Future: The 8 Most Game-Changing Innovations Of 2014
As the year draws to a close, it’s worth glancing over our shoulder. What technologies and themes were brightest in 2014? Read on. (And keep in mind, attempting such a summation is ambitious to the extreme -- let us know what we missed!) Illumina Breaks DNA Reading 'Sound Barrier' In January, Illumina announced that their latest DNA sequencing machine can transcribe 18,000 human genomes a year for $1,000 each -- down from hundreds of millions a decade ago. The $1,000 genome enables broad genomic studies that may yield insights into the origins of disease. To date, some 225,000 genomes have been sequenced, and genomic ...
Source: Science - The Huffington Post - December 17, 2014 Category: Science Source Type: news

IGVFox: Integrative Genomics Viewer control through mozilla Firefox
I've just pushed IGVFox 0.1 an add-on for Firefox, controlling IGV, the Integrative Genomics Viewer.This add-on allows the users to set the genomic position of IGV by just clicking a hyperlink in a HTML page. The source code is available on github at https://github.com/lindenb/igvfox and a first release is available as a *.xpi file at https://github.com/lindenb/igvfox/releases. That's it,
Source: YOKOFAKUN - October 15, 2014 Category: Bioinformatics Authors: Pierre Lindenbaum Source Type: blogs

Fitnet eyes clinical space with Kansas medical center childhood obesity pilot
Fitnet, the instructional video fitness app maker that launched in January of this year, has begun its first clinical pilot, a collaboration with the University of Kansas Medical Center (KUMC) sponsored by a $15,000 grant from Mozilla. Fitnet will work with eight families in KUMC’s Health Hawks childhood obesity program and provide an iPad and […]
Source: mobihealthnews - July 23, 2014 Category: Information Technology Authors: Jonah Comstock Tags: Uncategorized fitness app Fitnet iPad physical therapy app University of Kansas Medical Center video fitness Source Type: news

Scandals the order of the day during CEO departures in April, report says
Twelve Texas CEOs, including three in Austin, left their jobs during April, according to a national report that tracks CEO movement and Austin Business Journal research. But the big news was that six CEOs across the country, including one in Central Texas, left their jobs due to personal or corporate scandals. The highest-profile CEO departure in April was Mozilla Corp. CEO Brendan Eich, who said he would step down from his position after it became public that he had contributed money to a group…
Source: bizjournals.com Health Care:Pharmaceuticals headlines - May 20, 2014 Category: Pharmaceuticals Authors: Greg Barr Source Type: research

Estimation of fluorescence-tagged RNA numbers from spot intensities
Motivation: Present research on gene expression using live cell imaging and fluorescent proteins or tagged RNA requires accurate automated methods of quantification of these molecules from the images. Here, we propose a novel automated method for classifying pixel intensities of fluorescent spots to RNA numbers. Results: The method relies on a new model of intensity distributions of tagged RNAs, for which we estimated parameter values in maximum likelihood sense from measurement data, and constructed a maximum a posteriori classifier to estimate RNA numbers in fluorescent RNA spots. We applied the method to estimate the nu...
Source: Bioinformatics - April 9, 2014 Category: Bioinformatics Authors: Hakkinen, A., Kandhavelu, M., Garasto, S., Ribeiro, A. S. Tags: GENE EXPRESSION Source Type: research

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