Reference used for:

TCGA - miRNA

Downloaded from: 
wget ftp://ftp.ncbi.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Homo_sapiens/GRCh37/special_requests/GRCh37-lite.fa.gz
wget ftp://ftp.ncbi.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Homo_sapiens/GRCh37/special_requests/README.GRCh37-lite
wget ftp://ftp.ncbi.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Homo_sapiens/GRCh37/special_requests/GRCh37-lite.fa.deflines

bwa index -a bwtsw /home/pubseq/genomes/Homo_sapiens/GRCh37/1000genomes/bwa_ind/genome/GRCh37-lite.fa