Knowledge-guided analysis of "omics" data using the KnowEnG cloud platform.

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ID: 103878
2020
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Abstract
We present Knowledge Engine for Genomics (KnowEnG), a free-to-use computational system for analysis of genomics data sets, designed to accelerate biomedical discovery. It includes tools for popular bioinformatics tasks such as gene prioritization, sample clustering, gene set analysis, and expression signature analysis. The system specializes in "knowledge-guided" data mining and machine learning algorithms, in which user-provided data are analyzed in light of prior information about genes, aggregated from numerous knowledge bases and encoded in a massive "Knowledge Network." KnowEnG adheres to "FAIR" principles (findable, accessible, interoperable, and reuseable): its tools are easily portable to diverse computing environments, run on the cloud for scalable and cost-effective execution, and are interoperable with other computing platforms. The analysis tools are made available through multiple access modes, including a web portal with specialized visualization modules. We demonstrate the KnowEnG system's potential value in democratization of advanced tools for the modern genomics era through several case studies that use its tools to recreate and expand upon the published analysis of cancer data sets.
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blatti2020knowledgeguidedplos Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Blatti, Charles;Emad, Amin;Berry, Matthew J;Gatzke, Lisa;Epstein, Milt;Lanier, Daniel;Rizal, Pramod;Ge, Jing;Liao, Xiaoxia;Sobh, Omar;Lambert, Mike;Post, Corey S;Xiao, Jinfeng;Groves, Peter;Epstein, Aidan T;Chen, Xi;Srinivasan, Subhashini;Lehnert, Erik;Kalari, Krishna R;Wang, Liewei;Weinshilboum, Richard M;Song, Jun S;Jongeneel, C Victor;Han, Jiawei;Ravaioli, Umberto;Sobh, Nahil;Bushell, Colleen B;Sinha, Saurabh;
Journal plos biology
Year 2020
DOI
10.1371/journal.pbio.3000583
URL
Keywords
Internet of Things mobile edge computing sensor networks mobility sensor mobility-aware service cache service response time

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