Sequence Alignment Map

Abbreviation: SAM

General Information

The Sequence Alignment/Map (SAM) format is a TAB-delimited text format consisting of a header section, which is optional, and an alignment section.

Homepage https://github.com/samtools/samtools

Developed in China , United Kingdom , United States

Created in 2008

Taxonomic range

All

Scope and data types

Life Science

Nucleic acid sequence

Sequence

Sequence alignment

How to cite this record FAIRsharing.org: SAM; Sequence Alignment Map; DOI: https://doi.org/10.25504/FAIRsharing.k97xzh; Last edited: Feb. 22, 2018, 2:04 p.m.; Last accessed: Oct 19 2018 10:31 a.m.

Record updated: Nov. 28, 2016, 3:55 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.k97xzh' by 'The FAIRsharing Team' at 15:55, 28 Nov 2016 (approved):

	'name' has been modified:
		Before: Sequence Alignment Map Format
		After: Sequence Alignment Map Organisations have changed:  Previous values: National Institute of Health (NIH)|USA National Institute of Health (NIH)|USA The 1000 Genome Project The Wellcome Trust The Wellcome Trust The Wellcome Trust Sanger Institute US National Institutes of Health (NIH) US National Institutes of Health (NIH) New values:  National Institute of Health (NIH)|USA National Institute of Health (NIH)|USA The 1000 Genome Project The Wellcome Trust|UK The Wellcome Trust|UK The Wellcome Trust Sanger Institute|The Wellcome Trust Genome Campus|Hinxton|Cambridge CB10 1SA|UK. US National Institutes of Health (NIH) US National Institutes of Health (NIH)

Edits to 'https://fairsharing.org/FAIRsharing.k97xzh' by 'The FAIRsharing Team' at 11:14, 28 Nov 2016 (approved):

	'homepage' has been modified:
		Before: http://samtools.sourceforge.net/
		After: https://github.com/samtools/samtools Organisations have changed:  Previous values: The Wellcome Trust The Wellcome Trust The Wellcome Trust Sanger Institute US National Institutes of Health (NIH) US National Institutes of Health (NIH) US National Institutes of Health (NIH) New values:  The Wellcome Trust The Wellcome Trust Sanger Institute US National Institutes of Health (NIH) US National Institutes of Health (NIH) The 1000 Genome Project

Edits to 'https://fairsharing.org/FAIRsharing.k97xzh' by 'The FAIRsharing Team' at 11:01, 28 Nov 2016 (approved):

	'contactName' has been modified:
		Before:
			
		After:
			Richard Durbin
		Added:
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.k97xzh' by 'The FAIRsharing Team' at 19:45, 22 Oct 2016 (approved):

	'contactEmail' has been modified:
		Before: 
		After: rd@sanger.ac.uk Domain list has changed:  Previous values: Nucleic acid sequence|material|http://purl.obolibrary.org/obo/CHEBI_33696 Sequence Alignment|process|http://bioontology.org/ontologies/BiomedicalResourceOntology.owl#Sequence_Alignment Sequence data|property|http://purl.obolibrary.org/obo/OBI_0000973 New values:  Nucleic acid sequence|material|http://purl.obolibrary.org/obo/CHEBI_33696 Sequence Alignment|process|http://bioontology.org/ontologies/BiomedicalResourceOntology.owl#Sequence_Alignment Sequence data|property|http://purl.obolibrary.org/obo/OBI_0000973 Life Science|domain| Organisations have changed:  Previous values: New values:  The Wellcome Trust Sanger Institute Grants have changed:  Previous values: New values:  U54HG002750 077192/Z/05/Z

In Collections

FAIRDOM Community Standards

Support

General

Mailing List

None

Additional Information

Contact

Richard Durbin ORCID

Tools

No tools defined

Schemas

No XSD schemas defined

Access / Retrieve Data

Conditions of Use

Publications

The Sequence Alignment/Map format and SAMtools.

Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup
Bioinformatics 2009

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Implementing Databases (2)

modMine
modMine is an integrated web resource of data & tools to browse and search modENCODE data and experimental details, download results and access the GBrowse genome browser.

RhesusBase
A comprehensive online knowledgebase for the monkey research community.

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

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Funds

U.S. National Library of Medicine (Government body)
The Wellcome Trust (Research institute)
The Wellcome Trust, UK (Charitable foundation)
US National Institutes of Health (NIH) (Research institute)

Maintains

Grant Number(s)

077192/Z/05/Z (The Wellcome Trust)
U54HG002750 (U.S. National Library of Medicine)

Sequence Alignment Map

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