Motivation: Widespread interest in the study of the microbiome has resulted in data proliferation and the development of powerful computational tools. However, many scientific researchers lack the time, training, or infrastructure to work with large datasets or to install and use command line tools. Results: The National Institute of Allergy and Infectious Diseases (NIAID) has created Nephele, a cloud-based microbiome data analysis platform with standardized pipelines and a simple web interface for transforming raw data into biological insights. Nephele integrates common microbiome analysis tools as well as valuable reference datasets like the healthy human subjects cohort of the Human Microbiome Project (HMP). Nephele is built on the Amazon Web Services cloud, which provides centralized and automated storage and compute capacity, thereby reducing the burden on researchers and their institutions. Availability and implementation: https://nephele.niaid.nih.gov and https://github.com/niaid/Nephele. Contact: darrell.hurt@nih.gov.
Motivation: Widespread interest in the study of the microbiome has resulted in data proliferation and the development of powerful computational tools. However, many scientific researchers lack the time, training, or infrastructure to work with large datasets or to install and use command line tools. Results: The National Institute of Allergy and Infectious Diseases (NIAID) has created Nephele, a cloud-based microbiome data analysis platform with standardized pipelines and a simple web interface for transforming raw data into biological insights. Nephele integrates common microbiome analysis tools as well as valuable reference datasets like the healthy human subjects cohort of the Human Microbiome Project (HMP). Nephele is built on the Amazon Web Services cloud, which provides centralized and automated storage and compute capacity, thereby reducing the burden on researchers and their institutions. Availability and implementation: https://nephele.niaid.nih.gov and https://github.com/niaid/Nephele. Contact: darrell.hurt@nih.gov.
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Authors: Alexandra M Ortiz; Jacob K Flynn; Sarah R DiNapoli; Ornella Sortino; Ivan Vujkovic-Cvijin; Yasmine Belkaid; Irini Sereti; Jason M Brenchley Journal: J Virol Date: 2019-08-28 Impact factor: 5.103
Authors: Helmut Grasberger; Andrew T Magis; Elisa Sheng; Matthew P Conomos; Min Zhang; Lea S Garzotto; Guoqing Hou; Shrinivas Bishu; Hiroko Nagao-Kitamoto; Mohamad El-Zaatari; Sho Kitamoto; Nobuhiko Kamada; Ryan W Stidham; Yasutada Akiba; Jonathan Kaunitz; Yael Haberman; Subra Kugathasan; Lee A Denson; Gilbert S Omenn; John Y Kao Journal: J Clin Invest Date: 2021-05-03 Impact factor: 14.808
Authors: Snehal N Chaudhari; James N Luo; David A Harris; Hassan Aliakbarian; Lina Yao; Donggi Paik; Renuka Subramaniam; Arijit A Adhikari; Ashley H Vernon; Ayse Kiliç; Scott T Weiss; Jun R Huh; Eric G Sheu; A Sloan Devlin Journal: Cell Host Microbe Date: 2021-01-11 Impact factor: 21.023
Authors: Ornella Sortino; Nittaya Phanuphak; Alexandra Schuetz; Alexandra M Ortiz; Nitiya Chomchey; Yasmine Belkaid; Jacquice Davis; Harry A Mystakelis; Mariam Quiñones; Claire Deleage; Brian Ingram; Rungsun Rerknimitr; Suteeraporn Pinyakorn; Adam Rupert; Merlin L Robb; Jintanat Ananworanich; Jason Brenchley; Irini Sereti Journal: Open Forum Infect Dis Date: 2019-08-21 Impact factor: 3.835