Outside Resources

 

Genomic database used:

• Mouse genome assembly, Mus_musculus.GRCm38.74, was released by the Genome Reference Consortium in January 2012. It is based on Mus musculus strain C57BL/6J. This assembly is used by UCSC to create their mm10 database. FTP download site. Instructions, as well as previous mm9.
• Rat gemome, rn6 (Jul. 2014), and the Mar. 2012 (RGSC 5.0/rn5) assembly (rn5, RGSC Rnor_5.0 (GCA_000001895.3)), . FTP download site. Instructions.
• Zebrafish gemome, the Jul. 2010 (Zv9/danRer7) assembly (danRer7, Wellcome Trust Sanger Institute Zv9 (GCA_000002035.2). FTP download site. Instructions.
• Human genome, GRCh37.p2, GenBank Assembly ID GCA_000001405.14, Human Build 37 patch release 2. FTP download site. Instructions.
• Fruitfly genome, Drosophila_melanogaster.BDGP5.74. FTP download site. Instructions.
• Rabbit genome, oryCun2. FTP download site. Instructions.
• Pig genome, susScr3, SGSC Sscrofa10.2. FTP download site. Instructions.
• Stickleback genome, gasAcu1. FTP download site. Instructions.
• Cow genome, bosTau7. FTP download site. Instructions.
• Rice genome, MSU Rice Genome Annotation Project Release 7. FTP download site. Instructions.
• Dictyostelium genome, FTP download site. Instructions.
• CHO-K1 cell genome, CriGri_1.0, GCF_000223135.1 FTP download site. Instructions.
• Chinese hamster genome, Cricetulus griseus, C_griseus_v1.0, GCA_000419365.1 FTP download site. Instructions.
• Chicken genome (galGal4.fa.gz, ICGSC Gallus_gallus-4.0 (GCA_000002315.2)), FTP download site. Instructions.
• Physcomitrella patens genome V1.2.1 filtered assembly, FTP download site. Instructions.
• Arabidopsis_thaliana (TAIR10) genome, FTP download site.
• Pseudomonas putida KT2440 genome, FTP download site.
• Dog genome (CanFam3.1), also for MDCK cells, FTP download site. Instructions.
• Escherichia coli K-12 substrain MG1655 genome, U00096.3, Instructions.
• Toxoplasma gondii coli ME49 genome, Download site.
• Sheep genome (oviAri3.1), FTP download site.
• Yellow fever mosquito genome (Aedes aegypti genome scaffold version April 2014), Download site.
• Maize (Zea mays genome, GCF_000005005.1_B73_RefGen_v3), FTP download site. Instructions.
• Honey bee (Apis mellifera genome, Amel_4.5), FTP download site. Instructions.

PCR with selected genomic background, suggest to use:

• NCBI species-specific PRIMER-BLAST.

COD publication

• Guo_2015.pdf