'Big data', Hadoop and cloud computing in genomics
TLDR
An overview of cloud computing and big data technologies, and how such expertise can be used to deal with biology's big data sets is discussed, together with an overview of the current usage of Hadoop within the bioinformatics community.About:
This article is published in Journal of Biomedical Informatics.The article was published on 2013-10-01 and is currently open access. It has received 403 citations till now. The article focuses on the topics: Data-intensive computing & Big data.read more
Citations
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Proceedings ArticleDOI
Metaheuristics in big data: An approach to railway engineering
TL;DR: This paper addresses how metaheuristics can be used as an optimization technique to accurately analyze large data in railway engineering.
Journal ArticleDOI
The synthetic biology future.
TL;DR: This book tracks the evolution of synthetic biology from its earliest incarnations more than 50 years ago, through the DIYbio revolution, to the next 50 years.
Proceedings ArticleDOI
Flexible data-aware scheduling for workflows over an in-memory object store
Francisco Rodrigo Duro,Javier Garcia Blas,Florin Isaila,Justin M. Wozniak,Jesus Carretero,Robert Ross +5 more
TL;DR: It is demonstrated that these new mechanisms can significantly improve the aggregated throughput of many-task workflows with up to 86x, reduce the contention on the shared file system, exploit the data locality, and trade off locality and load balance.
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Toward multiomics-based next-generation diagnostics for precision medicine.
TL;DR: Overall, the translation of patient-specific data into actionable diagnostic tools will be a challenging task, requiring expertise from multiple disciplines, secure data sharing in large reference databases and a strong computational infrastructure.
Proceedings ArticleDOI
Design and Implementation of Network Transfer Protocol for Big Genomic Data
Mohammed Aledhari,Fahad Saeed +1 more
TL;DR: The results show that the modification to HTTP reduces the transmitted data by 75% of original data and still be able to regenerate the data at the client side for bioinformatics analysis, and the transfer of data using GTTP is shown to be much faster than HTTP when compared with regular HTTP.
References
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Journal ArticleDOI
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
Aaron McKenna,Matthew Hanna,Eric Banks,Andrey Sivachenko,Kristian Cibulskis,Andrew Kernytsky,Kiran V. Garimella,David Altshuler,Stacey Gabriel,Mark J. Daly,Mark A. DePristo +10 more
TL;DR: The GATK programming framework enables developers and analysts to quickly and easily write efficient and robust NGS tools, many of which have already been incorporated into large-scale sequencing projects like the 1000 Genomes Project and The Cancer Genome Atlas.
Journal ArticleDOI
Cramming More Components Onto Integrated Circuits
TL;DR: Integrated circuits will lead to such wonders as home computers or at least terminals connected to a central computer, automatic controls for automobiles, and personal portable communications equipment as mentioned in this paper. But the biggest potential lies in the production of large systems.
Journal Article
Cramming More Components onto Integrated Circuits
TL;DR: Integrated circuits will lead to such wonders as home computers or at least terminals connected to a central computer, automatic controls for automobiles, and personal portable communications equipment as discussed by the authors. But the biggest potential lies in the production of large systems.
Book
Big data: The next frontier for innovation, competition, and productivity
TL;DR: The amount of data in the authors' world has been exploding, and analyzing large data sets will become a key basis of competition, underpinning new waves of productivity growth, innovation, and consumer surplus, according to research by MGI and McKinsey.
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Galaxy: A platform for interactive large-scale genome analysis
Belinda Giardine,Cathy Riemer,Ross C. Hardison,Richard Burhans,Laura Elnitski,Prachi Shah,Prachi Shah,Yi Zhang,Daniel Blankenberg,Istvan Albert,James Taylor,Webb Miller,W. James Kent,Anton Nekrutenko +13 more
TL;DR: An interactive system, Galaxy, that 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.