Navigation Links
Galaxy DNA-analysis software is now available 'in the cloud'

Galaxy -- an open-source, web-based platform for data-intensive biomedical and genetic research -- is now available as a "cloud computing" resource. A team of researchers including Anton Nekrutenko, an associate professor of biochemistry and molecular biology at Penn State University; Kateryna Makova, an associate professor of biology at Penn State; and James Taylor from Emory University, developed the new technology, which will help scientists and biomedical researchers to harness such tools as DNA-sequencing and analysis software, as well as storage capacity for large quantities of scientific data. Details of the development will be published as a letter in the journal Nature Biotechnology. Earlier papers by Nekrutenko and co-authors describing the technology and its uses are published in the journals Genome Research and Genome Biology.

Nekrutenko said that he and his team first developed the Galaxy computing system ( in 2005 because "biology is in a state of shock. Biochemistry and biology labs generate mountains of data, and then scientists wonder, 'What do we do now? How do we analyze all these data?'" Galaxy, which was developed at Penn State and continues to use the University's servers for its computing power, solves many of the problems that researchers encounter by pulling together a variety of tools that allow for easy retrieval and analysis of large amounts of data, simplifying the process of genomic analysis. As described in one of the team's early papers in the journal Genome Research, Galaxy "combines the power of existing genome-annotation databases with a simple Web portal to enable users to search remote resources, combine data from independent queries, and visualize the results." Galaxy also allows other researchers to be able to review the steps that have been taken, for example, in the analysis of a string of genetic code. "Galaxy offers scientific transparency -- the option of creating a public report of analyses. So, after a paper has been published, scientists in other labs can do studies in order to reproduce the results described," Nekrutenko said.

Now, Nekrutenko's team has taken Galaxy to the next level by developing an "in the cloud" option using, for example, the popular Amazon Web Services cloud. "A cloud is basically a network of powerful computers that can be accessed remotely without the need to worry about heating, cooling, and system administration. Such a system allows users, no matter where they are in the world, to shift the workload of software storage, data storage, and hardware infrastructure to this remote location of networked computers," Nekrutenko explained. "Rather than run Galaxy on one's own computer or use Penn State's servers to access Galaxy, now a researcher can harness the power of the cloud, which allows almost unlimited computing power." As a case study, the authors report on recent research published in Genome Biology in which scientists, with the help of Ian Paul, a professor of pediatrics at Penn State's Hershey Medical Center, analyzed DNA from nine individuals across three families using Galaxy Cloud. Thanks to the enormous computing power of the platform, the researchers were able to identify four heteroplasmic sites -- variations in mitochondria, the part of the genome passed exclusively from mother to child.

"Galaxy Cloud offers many advantages other than the obvious ones, such as computing power for large amounts of data and the ability for a scientist without much computer training to use DNA-analysis tools that might not otherwise be accessible," Nekrutenko said. "For example, researchers need not invest in expensive computer infrastructure to be able to perform data-intensive, sophisticated scientific analyses."

Yet another advantage of Galaxy Cloud is its data-storage capacity. Using the Amazon Web Services cloud, researchers have the option of storing vast amounts of data in a secure location. "There are emerging technologies that will produce 100 times more data than existing 'next-generation' DNA sequencing, which already has reached the point where even more storage becomes an issue, not to mention analysis," Nekrutenko said.

Contact: Barbara Kennedy
Penn State

Related biology technology :

1. Medicsight Receives Brazilian State Food and Drug Administration Approval for ColonCAD Software
2. Chemical Lifecycle Management Chooses Chemical Safety's EMS Software
3. Top Biopharma Company Adopts BioFortis Translational Research Software for Centralized Management and Mining of Clinical Biomarker Data
4. Nucletron Announces Market Release of First Commercially Available Software to Review and Share Dicom-Based Treatment Plans for Radiotherapy
5. Akaza Research Releases New Version of OpenClinica Electronic Data Capture (EDC) Software; Targets Industry Clinical Trials
6. Newly Integrated Software Suite From ZS Associates Offers Comprehensive Set of Sales Performance Management Software Solutions
7. Finesse Solutions Launches TruBio 3.4 Bioreactor Control Software
8. Sysmex Announces Clinical Laboratory Software Name Change
9. Netsmart Technologies Selected by City and County of San Francisco to Provide Integrated Behavioral Healthcare Software System
10. DynaVox Releases Software Version 1.05 for DynaVox V and Vmax
11. Could Database Software Help Cure Alzheimers and Save the Earth?
Post Your Comments:
Related Image:
Galaxy DNA-analysis software is now available 'in the cloud'
(Date:6/27/2016)... --  Ginkgo Bioworks , a leading organism design ... awarded as one of the World Economic Forum,s ... innovative companies. Ginkgo Bioworks is engineering biology to ... in the nutrition, health and consumer goods sectors. ... including Fortune 500 companies to design microbes for ...
(Date:6/23/2016)... WA (PRWEB) , ... June 23, 2016 , ... ... announces the release of its second eBook, “Clinical Trials Patient Recruitment and Retention ... recruitment and retention in this eBook by providing practical tips, tools, and strategies ...
(Date:6/23/2016)... 23, 2016 Houston Methodist Willowbrook Hospital ... Sports Association to serve as their official health ... Methodist Willowbrook will provide sponsorship support, athletic training ... association coaches, volunteers, athletes and families. ... Sports Association and to bring Houston Methodist quality ...
(Date:6/23/2016)... ... June 23, 2016 , ... ... the launch of the Supplyframe Design Lab . Located in Pasadena, Calif., ... the future of how hardware projects are designed, built and brought to market. ...
Breaking Biology Technology:
(Date:5/16/2016)... --  EyeLock LLC , a market leader of iris-based ... IoT Center of Excellence in Austin, Texas ... embedded iris biometric applications. EyeLock,s iris authentication ... with unmatched biometric accuracy, making it the most proven ... platform uses video technology to deliver a fast and ...
(Date:5/3/2016)... Lithuania , May 3, 2016  Neurotechnology, ... released the MegaMatcher Automated Biometric Identification System ... of large-scale multi-biometric projects. MegaMatcher ABIS can process ... accuracy using any combination of fingerprint, face or ... MegaMatcher SDK and MegaMatcher Accelerator ...
(Date:4/26/2016)... and LONDON , April 26, ... of EdgeVerve Systems, a product subsidiary of Infosys ... announced a partnership to integrate the Onegini mobile ...      (Logo: ) ... customers enhanced security to access and transact across ...
Breaking Biology News(10 mins):