MGE-PortalWiki/BLAST - Revision history

Admin: 50 revisions

2011-10-26T06:17:48Z

50 revisions

← Older revision	Revision as of 08:17, 26 October 2011
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imported>FolkerMeyer at 08:50, 17 June 2005

2005-06-17T08:50:59Z

← Older revision		Revision as of 10:50, 17 June 2005
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	= Information about Sequence Databases =		= Information about Sequence Databases =

	The Center of Biotechnology hosts a wide range of public sequence ressources plus several specialized in-house databases. If you think something is missing or you have suggestions for improvements or special requirements, do not hesitate to contact [mailto:mg-~~bioinfo~~@cebitec.uni-bielefeld.de].		The Center of Biotechnology hosts a wide range of public sequence ressources plus several specialized in-house databases. If you think something is missing or you have suggestions for improvements or special requirements, do not hesitate to contact [mailto:mg-bielefeld@cebitec.uni-bielefeld.de].

	== General Sequence Databases ==		== General Sequence Databases ==

imported>MichaelBeckstette at 15:09, 17 January 2005

2005-01-17T15:09:03Z

← Older revision		Revision as of 17:09, 17 January 2005
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	The Center of Biotechnology hosts a wide range of public sequence ressources plus several specialized in-house databases. If you think something is missing or you have suggestions for improvements or special requirements, do not hesitate to contact [mailto:mg-bioinfo@cebitec.uni-bielefeld.de].		The Center of Biotechnology hosts a wide range of public sequence ressources plus several specialized in-house databases. If you think something is missing or you have suggestions for improvements or special requirements, do not hesitate to contact [mailto:mg-bioinfo@cebitec.uni-bielefeld.de].

	== General ~~sequence databases~~ ==		== General Sequence Databases ==

	'''Nucleotide ~~sequence databases~~:'''		'''Nucleotide Sequence Databases:'''

	''nt:'' nucleotide sequence database, with entries from all traditional divisions of GenBank, EMBL, and DDBJ excluding bulk divisions (gss (genome survey sequences), sts (sequence tagged sites), pat (patent), est (expressed sequence tags), and htgs (high throughput genome sequences) divisions). wgs (whole genome shotgun) entries are also excluded. Not non-redundant.		''nt:'' nucleotide sequence database, with entries from all traditional divisions of GenBank, EMBL, and DDBJ excluding bulk divisions (gss (genome survey sequences), sts (sequence tagged sites), pat (patent), est (expressed sequence tags), and htgs (high throughput genome sequences) divisions). wgs (whole genome shotgun) entries are also excluded. Not non-redundant.
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	''pdbnt:'' nucleotide sequences from pdb nucleic acid structures. They are NOT the protein coding sequences for the corresponding pdbaa entries.		''pdbnt:'' nucleotide sequences from pdb nucleic acid structures. They are NOT the protein coding sequences for the corresponding pdbaa entries.

	'''Protein ~~sequence databases~~:'''		'''Protein Sequence Databases:'''

	''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq		''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq
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	''pdbaa:'' protein sequences from pdb protein structures		''pdbaa:'' protein sequences from pdb protein structures

	== Specialized Databases ==		== Specialized Databases ==
	All specialized databases are subsets of the general nt, est, gss, htgs, and nr databases.		All specialized databases are subsets of the general nt, est, gss, htgs, and nr databases.
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	* nr_fishes: fishes specific subset of NCBIs non redundant protein database		* nr_fishes: fishes specific subset of NCBIs non redundant protein database

	'''Databases ~~of marine organisms~~'''		'''Databases Of Marine Organisms'''

	The marine organism databases contain sequences from the following taxonomic groups. Be aware of changes and enhancements of this database in the near future. Suggestions for further taxonomic categories or more fine grained categories are welcome.		The marine organism databases contain sequences from the following taxonomic groups. Be aware of changes and enhancements of this database in the near future. Suggestions for further taxonomic categories or more fine grained categories are welcome.

imported>MichaelBeckstette at 15:06, 17 January 2005

2005-01-17T15:06:10Z

← Older revision		Revision as of 17:06, 17 January 2005
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	__NOTOC__		__NOTOC__
	= ~~Informations~~ about Sequence Databases =		= Information about Sequence Databases =

	The Center of Biotechnology hosts a wide range of public sequence ressources plus several specialized in-house databases. If you think something is missing or you have suggestions for improvements or special requirements, do not hesitate to contact [mailto:mg-bioinfo@cebitec.uni-bielefeld.de].		The Center of Biotechnology hosts a wide range of public sequence ressources plus several specialized in-house databases. If you think something is missing or you have suggestions for improvements or special requirements, do not hesitate to contact [mailto:mg-bioinfo@cebitec.uni-bielefeld.de].

imported>MichaelBeckstette at 15:05, 17 January 2005

2005-01-17T15:05:46Z

← Older revision		Revision as of 17:05, 17 January 2005
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	''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (whole genome shotgun sequences).		''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (whole genome shotgun sequences).

	''other_genomic:'' [[RefSeq]] chromosome records for organisms other than human		''other_genomic:'' RefSeq chromosome records for organisms other than human

			''pdbnt:'' nucleotide sequences from pdb nucleic acid structures. They are NOT the protein coding sequences for the corresponding pdbaa entries.

	'''Protein sequence databases:'''		'''Protein sequence databases:'''
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	''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.		''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.

	''~~[[SwissProt]]~~:'' [[SwissProt]] sequence databases (last major update)		''swissprot:'' SwissProt sequence databases (last major update)

			''pdbaa:'' protein sequences from pdb protein structures
	== Specialized Databases ==		== Specialized Databases ==
	All specialized databases are subsets of the general nt, est, gss, htgs, and nr databases.		All specialized databases are subsets of the general nt, est, gss, htgs, and nr databases.

imported>MichaelBeckstette at 14:59, 17 January 2005

2005-01-17T14:59:50Z

← Older revision		Revision as of 16:59, 17 January 2005
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	''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.		''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.

			''[[SwissProt]]:'' [[SwissProt]] sequence databases (last major update)

	== Specialized Databases ==		== Specialized Databases ==

imported>MichaelBeckstette at 14:58, 17 January 2005

2005-01-17T14:58:23Z

← Older revision		Revision as of 16:58, 17 January 2005
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	''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (whole genome shotgun sequences).		''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (whole genome shotgun sequences).

			''other_genomic:'' [[RefSeq]] chromosome records for organisms other than human

	'''Protein sequence databases:'''		'''Protein sequence databases:'''

imported>MichaelBeckstette at 13:54, 17 January 2005

2005-01-17T13:54:02Z

← Older revision		Revision as of 15:54, 17 January 2005
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	''htgs:'' HTG division of GenBank, EMBL,and DDBJ		''htgs:'' HTG division of GenBank, EMBL,and DDBJ

	''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (~~WGS~~).		''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (whole genome shotgun sequences).

	'''Protein sequence databases:'''		'''Protein sequence databases:'''
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	''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq		''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq

	''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples ~~(WGS)~~.		''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.

	== Specialized Databases ==		== Specialized Databases ==

imported>MichaelBeckstette at 13:52, 17 January 2005

2005-01-17T13:52:38Z

← Older revision		Revision as of 15:52, 17 January 2005
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	''htgs:'' HTG division of GenBank, EMBL,and DDBJ		''htgs:'' HTG division of GenBank, EMBL,and DDBJ

	''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.		''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (WGS).

	'''Protein sequence databases:'''		'''Protein sequence databases:'''
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	''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq		''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq

	''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.		''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples (WGS).

	== Specialized Databases ==		== Specialized Databases ==

imported>MichaelBeckstette at 13:43, 17 January 2005

2005-01-17T13:43:46Z

← Older revision		Revision as of 15:43, 17 January 2005
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	''htgs:'' HTG division of GenBank, EMBL,and DDBJ		''htgs:'' HTG division of GenBank, EMBL,and DDBJ

	''env_nt:'' ~~Enviromental~~ samples database		''env_nt:'' Nucleotide enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.

	'''Protein sequence databases:'''		'''Protein sequence databases:'''
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	''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq		''nr:'' non-redundant protein sequence database with entries from GenPept, Swissprot, PIR, PDF, PDB, and NCBI RefSeq

	''env_nr:'' enviromental samples database		''env_nr:'' Protein enviromental samples database. Contains Sargasso sea environmental samples as well as mine drainage environmental samples.

	== Specialized Databases ==		== Specialized Databases ==