Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform

Li, Po-E; Lo, Chien -Chi; Anderson, Joseph J.; Davenport, Karen W.; Bishop-Lilly, Kimberly A.; Xu, Yan; Ahmed, Sanaa; Feng, Shihai; Mokashi, Vishwesh P.; Chain, Patrick S. G.

doi:10.1093/nar/gkw1027

Title: Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform

Journal Article · Thu Nov 24 00:00:00 EST 2016 · Nucleic Acids Research

DOI:https://doi.org/10.1093/nar/gkw1027· OSTI ID:1342855

Li, Po-E ^[1]; Lo, Chien -Chi ^[1]; Anderson, Joseph J. ^[2]; Davenport, Karen W. ^[1]; Bishop-Lilly, Kimberly A. ^[3]; Xu, Yan ^[1]; Ahmed, Sanaa ^[1]; Feng, Shihai ^[1]; Mokashi, Vishwesh P. ^[4];

^[1]

Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
Defense Threat Reduction Agency, Fort Belvoir, VA (United States); Naval Medical Research Center-Frederick, Fort Detrick, MD (United States)
Naval Medical Research Center-Frederick, Fort Detrick, MD (United States); Henry M. Jackson Foundation, Bethesda, MD (United States)
Naval Medical Research Center-Frederick, Fort Detrick, MD (United States)

Continued advancements in sequencing technologies have fueled the development of new sequencing applications and promise to flood current databases with raw data. A number of factors prevent the seamless and easy use of these data, including the breadth of project goals, the wide array of tools that individually perform fractions of any given analysis, the large number of associated software/hardware dependencies, and the detailed expertise required to perform these analyses. To address these issues, we have developed an intuitive web-based environment with a wide assortment of integrated and cutting-edge bioinformatics tools in pre-configured workflows. These workflows, coupled with the ease of use of the environment, provide even novice next-generation sequencing users with the ability to perform many complex analyses with only a few mouse clicks and, within the context of the same environment, to visualize and further interrogate their results. As a result, this bioinformatics platform is an initial attempt at Empowering the Development of Genomics Expertise (EDGE) in a wide range of applications for microbial research.

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Research Organization:: Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)

Sponsoring Organization:: USDOD; USDOE

Grant/Contract Number:: AC52-06NA25396

OSTI ID:: 1342855

Report Number(s):: LA-UR-15-27035; LA-UR-15-22467; TRN: US1701210

Journal Information:: Nucleic Acids Research, Vol. 45, Issue 1; Conference: DHS Biodetection strategy meeting, Los Alamos, NM (United States), 15-16 Apr 2015; ISSN 0305-1048

Publisher:: Oxford University PressCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 101 works

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