RNAget: an API to securely retrieve RNA quantifications

Abstract Summary Large-scale sharing of genomic quantification data requires standardized access interfaces. In this Global Alliance for Genomics and Health project, we developed RNAget, an API for secure access to genomic quantification data in matrix form. RNAget provides for slicing matrices to e...

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Veröffentlicht in:	Bioinformatics (Oxford, England) England), 2023-04, Vol.39 (4)
Hauptverfasser:	Upchurch, Sean, Palumbo, Emilio, Adams, Jeremy, Bujold, David, Bourque, Guillaume, Nedzel, Jared, Graham, Keenan, Kagda, Meenakshi S, Assis, Pedro, Hitz, Benjamin, Righi, Emilio, Guigó, Roderic, Wold, Barbara J
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Schlagworte:	Applications Note Genome Genomics RNA Sequence Analysis, RNA Software
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creator	Upchurch, Sean Palumbo, Emilio Adams, Jeremy Bujold, David Bourque, Guillaume Nedzel, Jared Graham, Keenan Kagda, Meenakshi S Assis, Pedro Hitz, Benjamin Righi, Emilio Guigó, Roderic Wold, Barbara J
description	Abstract Summary Large-scale sharing of genomic quantification data requires standardized access interfaces. In this Global Alliance for Genomics and Health project, we developed RNAget, an API for secure access to genomic quantification data in matrix form. RNAget provides for slicing matrices to extract desired subsets of data and is applicable to all expression matrix-format data, including RNA sequencing and microarrays. Further, it generalizes to quantification matrices of other sequence-based genomics such as ATAC-seq and ChIP-seq. Availability and implementation https://ga4gh-rnaseq.github.io/schema/docs/index.html.
doi_str_mv	10.1093/bioinformatics/btad126
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subjects	Applications Note Genome Genomics RNA Sequence Analysis, RNA Software
title	RNAget: an API to securely retrieve RNA quantifications
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