'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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Visualization and Integrative analysis of cancer multi-omics data
TL;DR: iGPSe is designed to assist researchers in effectively performing integrative multi-omics analysis through interactive visualization components, which leverages multiple types of molecular features to further characterize patients and tumors.
Book ChapterDOI
Introduction to the Analysis of Environmental Sequence Information Using Metapathways
Proceedings ArticleDOI
Cloud-based health monitoring system based on Commercial Off-The-Shelf hardware
TL;DR: This paper proposes a three-layered architecture for the implementation of cloud-based health monitoring system that utilizes ubiquitous commercial health measuring devices and identifies critical issues and problems that could arise in each layer.
The Case for Dual-access File Systems over Object Storage.
TL;DR: It is argued that there is a need for dual-access file systems over object storage, and some representative use cases which benefit from such systems are examined, and an early prototype of Agni1, an efficient dual- access OSFS which overcomes the shortcomings of existing approaches are designed.
Posted Content
Scalable Protein Sequence Similarity Search using Locality-Sensitive Hashing and MapReduce
TL;DR: A novel approach called ScalLoPS is proposed that performs searching on protein sequence datasets using LSH (Locality-Sensitive Hashing) that is implemented using the MapReduce distributed framework that is designed to scale across computing resources sourced from cloud computing providers.
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.
Journal ArticleDOI
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.