Biowulf High Performance Computing at the NIH
Scientific Databases

Mouse Genome Data

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Description Format Location on HPC systems Last Updated
Build 37, mm9, Jul 2007 from the Mouse Genome ConsortiumMySQL
Accessible through the HPC mirror of the UCSC Genome Browser. Also available for direct MySQL queries from the Biowulf cluster nodes.
NIH mirror of UCSC Genome Browser 2020-02-16 19:01:38
(Updated weekly)
Source: genome-ftp.cse.ucsc.edu
Build 36, mm8, Mar 2006 from the Mouse Genome ConsortiumMySQL
Accessible through the HPC mirror of the UCSC Genome Browser. Also available for direct MySQL queries from the Biowulf cluster nodes.
NIH mirror of UCSC Genome Browser 2020-02-16 19:01:38
(Updated weekly)
Source: genome-ftp.cse.ucsc.edu
Genome Reference Consortium Mouse Build 38 patch release 6 (2017/09/15) proteinsBlast (Prot)
Blast v5 databases. For use via command-line Blast or easyblast on Biowulf
/fdb/blastdb/GRCm38.p6.prot 2020-02-12 16:03:20
(Updated after release)
Source: ftp.ncbi.nlm.nih.gov
Genome Reference Consortium Mouse Build 38 patch release 6 (2017/09/15)Blast (Nuc)
Blast v5 databases. For use via command-line Blast or easyblast on Biowulf
/fdb/blastdb/GRCm38.p6 2020-02-12 16:03:06
(Updated after new build release)
Source: ftp.ncbi.nlm.nih.gov
Genome Reference Consortium Mouse Build 38 patch release 6 (2017/09/15) proteinsFasta (Prot)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/genome/GRCm38.p6 2020-02-12 12:29:03
(Updated after release)
Source: ftp.ncbi.nlm.nih.gov
Genome Reference Consortium Mouse Build 38 patch release 6 (2017/09/15)Fasta (Nuc)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/genome/GRCm38.p6 2020-02-12 12:28:37
(Updated after new build release)
Source: ftp.ncbi.nlm.nih.gov
Build 37, hg19 (Feb 2009) from the International Human Genome ConsortiumMySQL
Accessible through the HPC mirror of the UCSC Genome Browser. Also available for direct MySQL queries from the Biowulf cluster nodes.
NIH mirror of UCSC Genome Browser 2019-06-30 19:02:17
(Updated weekly)
Source: genome.ucsc.edu
mm10, GRC Build 38Fasta
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/ensembl/pub/release-96/fasta/mus_musculus 2019-04-09 12:27:11
(Updated one-time)
Source: ftp.ensembl.org
mm10, GRC Build 38.dict
Sequence dictionary file produced by Picard CreateSequenceDictionary
/fdb/dict/igenomes.ucsc.mm10.dict 2014-11-10 15:54:31
(Updated one-time)
Source: Built using picard from /fdb/igenomes/Mus_musculus/UCSC/Sequence/WholeGenomeFasta/genome.fa
Build 37, mm9, Jul 2007 from the Mouse Genome ConsortiumIgenomes
Illumina's Igenomes are a collection of reference sequences and annotation files for commonly analyzed organisms. More info at Illumina
/fdb/igenomes/Mus_musculus 2012-09-25 14:53:51
(Updated one-time)
Source: support.illumina.com
Build 38, mm10, Jul 2007 from the Mouse Genome ConsortiumIgenomes
Illumina's Igenomes are a collection of reference sequences and annotation files for commonly analyzed organisms. More info at Illumina
/fdb/igenomes/Mus_musculus 2012-09-25 14:53:51
(Updated one-time)
Source: support.illumina.com
mm10, GRC Build 38Fasta (Nuc)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/genome/mm10/ 2011-04-06 08:31:46
(Updated after new build release)
Source: genome-ftp.cse.ucsc.edu
Build 37, mm9, Jul 2007 from the Mouse Genome ConsortiumFasta (Nuc)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/genome/mm9/ 2011-04-06 08:31:46
(Updated after new build release)
Source: genome-ftp.cse.ucsc.edu
Build 36, mm8, Mar 2006 from the Mouse Genome ConsortiumFasta (Nuc)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/genome/mouse-mar2006/ 2010-07-08 11:32:27
(Updated after new build release)
Source: genome-ftp.cse.ucsc.edu
Build 37, mm9, Jul 2007 from the Mouse Genome ConsortiumFasta (Nuc)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/fastadb/mouse_genome.rna.fas 2008-03-25 20:43:46
(Updated after release)
Source: ftp.ncbi.nlm.nih.gov
Build 37, mm9, Jul 2007 from the Mouse Genome ConsortiumFasta (Prot)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/fastadb/mouse_genome.protein.fas 2008-03-25 20:42:45
(Updated one-time)
Source: ftp.ncbi.nlm.nih.gov
Build 36, mm8, Mar 2006 from the Mouse Genome ConsortiumFasta (Prot)
Fasta-format flatfile databases used by Fasta, Blat and other programs.
/fdb/genome/mouse-mar2006/mouse_genome.protein.fas 2006-11-09 13:49:51
(Updated weekly)
Source: ftp.ncbi.nlm.nih.gov

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