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a catalog of biological databases

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Database information

INSDC (International Nucleotide Sequence Database Collaboration)

General information

Description: INSDC is a long-standing foundational initiative that operates between DDBJ, EMBL-EBI and NCBI. INSDC covers the spectrum of data raw reads, though alignments and assemblies to functional annotation, enriched with contextual information relating to samples and experimental configurations.
Year founded: 2002
Last update: 2015-12-10
Version:
Accessibility:
Manual:
Accessible
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Country/Region: United Kingdom
Data type:
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: European Bioinformatics Institute
Address: European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK
City: Cambridge
Province/State: Cambridgeshire
Country/Region: United Kingdom
Contact name (PI/Team): Guy Cochrane
Contact email (PI/Helpdesk): cochrane@ebi.ac.uk

Record metadata

Created on: 2015-12-24
Curated by:
zhang yang [2018-01-28]
Chunlei Yu [2016-04-17]
Mengwei Li [2016-02-21]
Lin Liu [2016-02-08]
Lin Liu [2016-01-20]
Lina Ma [2015-12-24]
Lin Liu [2015-12-24]

Ranking

All databases:
316/4549 (93.075%)
Metadata:
20/437 (95.652%)
Standard ontology and nomenclature:
24/182 (87.363%)
316
Total Rank
210
Citations
23.333
z-index

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Publications

29190397
The international nucleotide sequence database collaboration. [PMID: 29190397]
Karsch-Mizrachi I, Takagi T, Cochrane G, International Nucleotide Sequence Database Collaboration.

For more than 30 years, the International Nucleotide Sequence Database Collaboration (INSDC; http://www.insdc.org/) has been committed to capturing, preserving and providing access to comprehensive public domain nucleotide sequence and associated metadata which enables discovery in biomedicine, biodiversity and biological sciences. Since 1987, the DNA Data Bank of Japan (DDBJ) at the National Institute for Genetics in Mishima, Japan; the European Nucleotide Archive (ENA) at the European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI) in Hinxton, UK; and GenBank at National Center for Biotechnology Information (NCBI), National Library of Medicine, National Institutes of Health in Bethesda, Maryland, USA have worked collaboratively to enable access to nucleotide sequence data in standardized formats for the worldwide scientific community. In this article, we reiterate the principles of the INSDC collaboration and briefly summarize the trends of the archival content.

Nucleic Acids Res. 2018:46(D1) | 22 Citations (from Europe PMC, 2020-07-11)
26657633
The International Nucleotide Sequence Database Collaboration. [PMID: 26657633]
Cochrane G, Karsch-Mizrachi I, Takagi T, International Nucleotide Sequence Database Collaboration.

The International Nucleotide Sequence Database Collaboration (INSDC; http://www.insdc.org) comprises three global partners committed to capturing, preserving and providing comprehensive public-domain nucleotide sequence information. The INSDC establishes standards, formats and protocols for data and metadata to make it easier for individuals and organisations to submit their nucleotide data reliably to public archives. This work enables the continuous, global exchange of information about living things. Here we present an update of the INSDC in 2015, including data growth and diversification, new standards and requirements by publishers for authors to submit their data to the public archives. The INSDC serves as a model for data sharing in the life sciences. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

Nucleic Acids Res. 2016:44(D1) | 42 Citations (from Europe PMC, 2020-07-11)
23180798
The International Nucleotide Sequence Database Collaboration. [PMID: 23180798]
Nakamura Y, Cochrane G, Karsch-Mizrachi I, International Nucleotide Sequence Database Collaboration.

The International Nucleotide Sequence Database Collaboration (INSDC; http://www.insdc.org), one of the longest-standing global alliances of biological data archives, captures, preserves and provides comprehensive public domain nucleotide sequence information. Three partners of the INSDC work in cooperation to establish formats for data and metadata and protocols that facilitate reliable data submission to their databases and support continual data exchange around the world. In this article, the INSDC current status and update for the year of 2012 are presented. Among discussed items of international collaboration meeting in 2012, BioSample database and changes in submission are described as topics.

Nucleic Acids Res. 2013:41(Database issue) | 68 Citations (from Europe PMC, 2020-07-11)
22080546
The International Nucleotide Sequence Database Collaboration. [PMID: 22080546]
Karsch-Mizrachi I, Nakamura Y, Cochrane G, International Nucleotide Sequence Database Collaboration.

The members of the International Nucleotide Sequence Database Collaboration (INSDC; http://www.insdc.org) set out to capture, preserve and present globally comprehensive public domain nucleotide sequence information. The work of the long-standing collaboration includes the provision of data formats, annotation conventions and routine global data exchange. Among the many developments to INSDC resources in 2011 are the newly launched BioProject database and improved handling of assembly information. In this article, we outline INSDC services and update the reader on developments in 2011.

Nucleic Acids Res. 2012:40(Database issue) | 43 Citations (from Europe PMC, 2020-07-11)
21106499
The International Nucleotide Sequence Database Collaboration. [PMID: 21106499]
Cochrane G, Karsch-Mizrachi I, Nakamura Y, International Nucleotide Sequence Database Collaboration.

Under the International Nucleotide Sequence Database Collaboration (INSDC; http://www.insdc.org), globally comprehensive public domain nucleotide sequence is captured, preserved and presented. The partners of this long-standing collaboration work closely together to provide data formats and conventions that enable consistent data submission to their databases and support regular data exchange around the globe. Clearly defined policy and governance in relation to free access to data and relationships with journal publishers have positioned INSDC databases as a key provider of the scientific record and a core foundation for the global bioinformatics data infrastructure. While growth in sequence data volumes comes no longer as a surprise to INSDC partners, the uptake of next-generation sequencing technology by mainstream science that we have witnessed in recent years brings a step-change to growth, necessarily making a clear mark on INSDC strategy. In this article, we introduce the INSDC, outline data growth patterns and comment on the challenges of increased growth.

Nucleic Acids Res. 2011:39(Database issue) | 35 Citations (from Europe PMC, 2020-07-11)