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Careers in Bioinformatics
Precision medicine integrates molecular and clinical research with patient data and outcomes, aiming to place the patient at the center of all elements. In this emerging field, bioinformatics is a core technology. Learn how bioinformatics has evolved to deal with Next Gen Sequencing data and explore new career opportunities for biomedical and clinical researchers
UCSF Taps Atul Butte to Lead Big Data Center
UC San Francisco has recruited a world-renowned expert in medical technology, Atul Butte, MD, PhD, to lead the new UCSF Institute for Computational Health Sciences, which will serve as a cornerstone of the university’s efforts to harness the power of “big data,” to lead to faster and more effective cures for patients worldwide.
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A noted expert in pediatrics and medical informatics at Stanford University, Butte brings the rare combination of deep knowledge in medicine and biomedical research, and technological fluency to lead in the new realm of computational health. The appointment will be effective April 1.
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Digital World Biology - Highlights from 2014
Bioinformatics Core announce their training courses for 2015
The Genome Center’s Bioinformatics Core facility has recently announced three training courses for 2015. Click on the links below for more details about the content of each course and for information on how to register:
11 Python Libraries You Might Not Know
There are tons of Python packages out there. So many that no one man or woman could possibly catch them all. PyPi alone has over 47,000 packages listed!
WuXi buys NextCode Health for $65M
China based WuXi PharmaTech has acquired NextCODE Health, a genomic analysis and bioinformatics company with operations in the United States and Iceland, for $65 million in cash.
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WuXi plans to merge NextCODE Health and WuXi's Genome Center into a new company to be named WuXi NextCODE Genomics. The business will be headquartered in Shanghai, with operations in Cambridge, Massachusetts, and Reykjavik, Iceland. The leadership of WuXi NextCODE Genomics will include Dr Ge Li as CEO, Edward Hu as CFO, Hannes Smarason as COO, Dr Jeffrey Gulcher as CSO, Dr Hongye Sun as CTO, and Dr Hakon Gudbjartsson as VP Informatics.
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Bioinformatics: The Next Frontier of Metabolomics
what makes for a good bioinformatics 'brand' name?
BioInformatics Rolls Out Interactive Data Tools
Life science industry research and advisory firm BioInformatics has launched a cloud-based analytics tool called Interactive Market Intelligence, through which end users can filter, create and export views of data.
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BioInformatics and its
SDi analytical equipment research division have access to an expert network of more than 72,000 life scientists through which to glean insights for clients. The firm also offers services to assess the size and attractiveness of scientific markets, optimize product configurations and pricing, validate corporate acquisitions, measure customer loyalty, and evaluate brand strength and positioning.
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Workshops (2015)
Dedicated Computing Goes Cluster Ready for Bioinformatics
This week Dedicated Computing announced its participation in the Intel Cluster Ready program to deliver integrated HPC cluster solutions to the Life Sciences market. Powered by Intel Xeon processors, Dedicated Computing is offering a family of purpose built analytics and storage clusters for use in bioinformatics research.
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Dedicated Computing’s HPC cluster, built upon Intel Cluster Ready architecture, will provide a fully integrated and optimized cluster. From entry level, compact clusters, featuring four multi-core homogeneous nodes, to those with hundreds of heterogeneous computing nodes, and combined with 20 Terabytes to multiple Petabytes of object store, these scalable solutions will be able to support the massive amounts of data that needs to be analyzed, interpreted and stored. These integrated cluster solutions contain securely maintained open source software stacks and cluster management that are designed to accelerate time-to-market, minimize costly validation and verification and enable 24x7x365 system monitoring for increased uptime.
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UCLA Research Center to Focus on Healthcare Big Data Analytics
Researchers and faculty at UCLA will be diving into big data analytics at the newly formed Institute for Quantitative and Computational Biosciences (QCBio), a multi-disciplinary collaboration that hopes to foster personalized medicine. Headed by Alexander Hoffmann, a professor of genetics, immunology, and microbiology, the Institute will attempt to answer pressing questions about the impact of genetics and other biological factors on the development and treatment of cancer, infectious disease, and additional conditions.
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“UCLA’s Institute for Quantitative and Computational Biosciences will have a major, positive impact on human health,” said UCLA Chancellor Gene Block. “It will engage exceptional faculty from the life sciences and physical sciences, and our David Geffen School of Medicine and Henry Samueli School of Engineering and Applied Science to ensure that UCLA is at the forefront of research that will help usher in a new era of personalized health care, and to transform research and education in the biosciences.”
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Genetics as a Social Network – A Data Scientist Perspective
Data science and biology have never really mixed well. And in retrospect, it’s pretty understandable why. Biology and medicine have their own lingua franca, which makes for a pretty steep learning curve. People who thrive at this intersection not only have to be in tune with the fundamentals of biochemistry and genetics, but also need to be mathematically adept and strong algorithmic thinkers.
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For decades, we’ve gotten away with computer scientists sticking with computers and biologists sticking with genetics. But things are rapidly changing, and there’s a growing need for people who can bring a data-driven approach to medicine. The advent of modern high-throughput biotechnology has brought upon a data deluge that has completely changed the field’s landscape. For example, a binary alignment file for a single human genome could easily amount to hundreds of gigabytes or terabytes of raw data. Without data science, we risk missing out on valuable insights that could fundamentally change how we deliver medicine.
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Bioinformatics Distro Bio-Linux 8.0.5 Now Available for Download
Bio-Linux, a fully-featured, powerful, configurable, and easy to maintain bioinformatics workstation built on the Ubuntu operating system, has been upgraded to version 8.0.5 and is now available for download. The Bio-Linux operating system is based on Ubuntu 14.04 LTS (Trusty Tahr), and the previous version was using Ubuntu 12.04 LTS.
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Bio-Linux, a fully-featured, powerful, configurable, and easy to maintain bioinformatics workstation built on the Ubuntu operating system, has been upgraded to version 8.0.5 and is now available for download.
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More Rotavirus Vaccination Means Less Rotavirus
The more children who are vaccinated againstrotavirus at your pediatrician’s office, the less likely it is that your child will be exposed to the gastrointestinal illness, a new studyhas concluded. That might sound like a no-brainer, but with vaccine coverage as low as 0%* at some practices included in this study, these findings have significant implications for children unable to be vaccinated against rotavirus.
- Kids were more than three times more likely to have rotavirus if they were patients at a location where less than 40% of other patients received at least one dose of the rotavirus vaccine (compared to locations with at least 80% coverage).
- Read More
New Tick-Borne 'Bourbon Virus'
Thought to be transmitted by ticks, the virus "was fast-moving and severe, causing lung and kidney failure, and shock," The New York Times reported, killing the previously healthy man after only 10 days in the hospital.
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Bourbon virus, named after Bourbon County, Kansas,
where the only known patient lived, is similar to viruses seen previously in Eastern Europe, Africa and Asia, said Hawkinson, but nothing like it had ever been identified in the Western Hemisphere before.
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The 4C Genome Browser
The 4C Genome Browser serves more than 300 data tracks (100+ viewpoints at 2 to 4 experimental conditions). Due to the nature of 4C data, only a subset of 4C tracks are relevant to display given a particular genomic position. To improve your browsing experience, the browser is shipped with an internally developed JBrowse plugin named Dynamix.
The Impact of Spatial Structure on Viral Genomic Diversity
Most clinical and natural microbial communities live and evolve in spatially structured environments. When changes in environmental conditions trigger evolutionary responses, spatial structure can impact the types of adaptive response and the extent to which they spread.
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In particular, localized competition in a spatial landscape can lead to the emergence of a larger number of different adaptive trajectories than would be found in well-mixed populations. Our goal was to determine how two levels of spatial structure affect genomic diversity in a population and how this diversity is manifested spatially.
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Journal of Proteomics & Bioinformatics
Epilepsy Research Benefits from the Crowd
For millions of people with epilepsy, life comes with too many restrictions. If they just had a reliable way to predict when their next seizure will come, they could have a chance at leading more independent and productive lives.
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That’s why it is so encouraging to hear that researchers have developed a new algorithm that can predict the onset of a seizure correctly 82 percent of the time. Until recently, the best algorithm was hardly better than flipping a coin, leading some to speculate that seizures are random neurological events that can’t be predicted at all. But the latest leap forward shows that seizures certainly can be predicted, and our research efforts are headed in the right direction to make them even more predictable. The other big news is how this new algorithm was developed: it’s the product of a crowdsourcing competition.
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Bioinformatics firm Eagle adds to senior team
Eagle has appointed Michael Reynolds as vice president of global sales as it prepares to launch a new bioinformatics software platform that will allow 'intelligent sharing' of genomic data later this year.
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Reynolds joins the Cambridge, UK-based company from Pilgrim Software, where he was director of EMEA sales, and during a 20-year pharma and life sciences career his prior roles include stints at Smart Analyst, APC Pharma and Etrials.
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