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MetaSRA

General Information

MetaSRA is a database of normalized SRA human sample-specific metadata following a schema inspired by the metadata organization of the ENCODE project. This schema involves mapping samples to terms in biomedical ontologies, labeling each sample with a sample-type category, and extracting real-valued properties.

Homepage http://metasra.biostat.wisc.edu/

Countries that developed this resource United States

Created in 2017

Taxonomic range

Homo sapiens

Knowledge Domains

Subjects

User-defined Tags

Metadata standardization

How to cite this record FAIRsharing.org: MetaSRA; MetaSRA; DOI: https://doi.org/10.25504/FAIRsharing.ZS8uWa; Last edited: Feb. 9, 2021, 4 p.m.; Last accessed: Jul 30 2021 6:11 p.m.

Publication for citation MetaSRA: normalized human sample-specific metadata for the Sequence Read Archive. Bernstein MN,Doan A,Dewey CN; Bioinformatics ; 2017; 10.1093/bioinformatics/btx334;

This record is maintained by cndewey

Record added: Nov. 4, 2019, 2:32 p.m.
Record updated: Feb. 9, 2021, 3:54 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.ZS8uWa' by 'The FAIRsharing Team' at 15:54, 09 Feb 2021 (approved):

	'accessPoints' has been modified:
		Before:
			REST|http://metasra.biostat.wisc.edu/api.html|MetaSRA API
		After:
			REST|https://metasra.biostat.wisc.edu/supportpages/api.html|MetaSRA API
		Added:
			REST|https://metasra.biostat.wisc.edu/supportpages/api.html|MetaSRA API
		Removed:
			REST|http://metasra.biostat.wisc.edu/api.html|MetaSRA API

	'dataProcesses' has been modified:
		Before:
			Download, data release, http://metasra.biostat.wisc.edu/download.html
			Search, data access, http://metasra.biostat.wisc.edu/
		After:
			Download, data release, https://metasra.biostat.wisc.edu/supportpages/download.html
			Search, data access, http://metasra.biostat.wisc.edu/
		Added:
			Download, data release, https://metasra.biostat.wisc.edu/supportpages/download.html
		Removed:
			Download, data release, http://metasra.biostat.wisc.edu/download.html

	'onto_domains' has been modified:
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			Experiment report
			Nucleic acid sequence
			RNA-seq assay
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			Nucleic acid sequence
			RNA-seq assay
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			Experiment report

Edits to 'https://fairsharing.org/FAIRsharing.ZS8uWa' by 'The FAIRsharing Team' at 10:15, 03 Feb 2020 (approved):

	'supportLinks' has been modified:
		Before:
			FAQ|http://metasra.biostat.wisc.edu/about.html
			forum|https://groups.google.com/forum/#!forum/metasra-users
			online documentation|http://metasra.biostat.wisc.edu/publication.html
			online documentation|https://github.com/deweylab/metasra-pipeline
			online documentation|https://docs.google.com/forms/d/e/1FAIpQLSc86s4Bi_g1E0vFLpMBwty8JEE3IMFKwasPrFzBAmngILjJQg/viewform
		After:
			FAQ|http://metasra.biostat.wisc.edu/about.html
			contact form|https://docs.google.com/forms/d/e/1FAIpQLSc86s4Bi_g1E0vFLpMBwty8JEE3IMFKwasPrFzBAmngILjJQg/viewform
			forum|https://groups.google.com/forum/#!forum/metasra-users
			online documentation|http://metasra.biostat.wisc.edu/publication.html
			online documentation|https://github.com/deweylab/metasra-pipeline
		Added:
			contact form|https://docs.google.com/forms/d/e/1FAIpQLSc86s4Bi_g1E0vFLpMBwty8JEE3IMFKwasPrFzBAmngILjJQg/viewform
		Removed:
			online documentation|https://docs.google.com/forms/d/e/1FAIpQLSc86s4Bi_g1E0vFLpMBwty8JEE3IMFKwasPrFzBAmngILjJQg/viewform

Edits to 'https://fairsharing.org/FAIRsharing.ZS8uWa' by 'The FAIRsharing Team' at 10:00, 03 Feb 2020 (approved):

	'supportLinks' has been modified:
		Before:
			forum|https://groups.google.com/forum/#!forum/metasra-users
			online documentation|http://metasra.biostat.wisc.edu/about.html
			online documentation|http://metasra.biostat.wisc.edu/publication.html
			online documentation|https://github.com/deweylab/metasra-pipeline
		After:
			FAQ|http://metasra.biostat.wisc.edu/about.html
			forum|https://groups.google.com/forum/#!forum/metasra-users
			online documentation|http://metasra.biostat.wisc.edu/publication.html
			online documentation|https://github.com/deweylab/metasra-pipeline
			online documentation|https://docs.google.com/forms/d/e/1FAIpQLSc86s4Bi_g1E0vFLpMBwty8JEE3IMFKwasPrFzBAmngILjJQg/viewform
		Added:
			FAQ|http://metasra.biostat.wisc.edu/about.html
			online documentation|https://docs.google.com/forms/d/e/1FAIpQLSc86s4Bi_g1E0vFLpMBwty8JEE3IMFKwasPrFzBAmngILjJQg/viewform
		Removed:
			online documentation|http://metasra.biostat.wisc.edu/about.html

Edits to 'https://fairsharing.org/FAIRsharing.ZS8uWa' by 'The FAIRsharing Team' at 09:58, 03 Feb 2020 (approved):

	'organizations' has been modified:
		Before:
			Department of Computer Sciences, University of Wisconsin, Madison, USA|https://www.cs.wisc.edu/|Maintains
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			Department of Computer Sciences, University of Wisconsin, Madison, USA|https://www.cs.wisc.edu/|Maintains
			 National Institutes of Health (NIH), Bethesda, MD, USA|https://www.nih.gov/|Funds
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			 National Institutes of Health (NIH), Bethesda, MD, USA|https://www.nih.gov/|Funds
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	'grants' has been modified:
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			AI117924
			HG007019
			LM007359
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			AI117924
			HG007019
			LM007359
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	'onto_disciplines' has been modified:
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			Bioinformatics
		After:
			Bioinformatics
			Life Science
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			Life Science
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	'contactORCID' has been modified:
		Before: 
		After: 0000-0003-1498-9254

Support

General

FAQ	About MetaSRA & FAQ
contact form	Send feedback
forum	Google Group
online documentation	Supplementary Material for Publication
online documentation	GitHub Project

Additional Information

Contact

Colin Dewey ORCID

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

Data Release

Download

https://metasra.biostat.wisc.edu/supportpages/download.html

Data Access

http://metasra.biostat.wisc.edu/

REST Web Services

MetaSRA API

https://metasra.biostat.wisc.edu/supportpages/api.html

Publications

MetaSRA: normalized human sample-specific metadata for the Sequence Read Archive.

Bernstein MN,Doan A,Dewey CN
Bioinformatics 2017

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by cndewey

Funds

National Institutes of Health (NIH), Bethesda, MD, USA (Government body)

Maintains

Department of Computer Sciences, University of Wisconsin, Madison, USA (University) Lead

Grant Number(s)

AI117924 (National Institutes of Health (NIH), Bethesda, MD, USA)
HG007019 (National Institutes of Health (NIH), Bethesda, MD, USA)
LM007359 (National Institutes of Health (NIH), Bethesda, MD, USA)

MetaSRA

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