A> GENCODE (1. DNA, 2. cDNA, 3. GTF) ========================================= A1> DNA (GENCODE) # human ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_35/GRCh38.primary_assembly.genome.fa.gz ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_35/MD5SUMS # mouse ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/GRCm38.primary_assembly.genome.fa.gz ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/MD5SUMS A2> cDNA (GENCODE) # human ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_35/gencode.vM25.transcripts.fa.gz ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_35/MD5SUMS # mouse ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/gencode.vM25.transcripts.gz ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/MD5SUMS A3> Annotation (GENCODE) # human ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_35/gencode.v35.annotation.gtf.gz ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_35/MD5SUMS # mouse ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/gencode.vM25.annotation.gtf.gz ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M25/MD5SUMS B> ENSEMBL (1. DNA, 2. cDNA, 3. GTF) ========================================= B1> DNA (ENSEMBL) # human ftp://ftp.ensembl.org/pub/release-101/fasta/homo_sapiens/dna/Homo_sapiens.GRCh38.dna.toplevel.fa.gz ftp://ftp.ensembl.org/pub/release-101/fasta/homo_sapiens/dna/CHECKSUMS # mouse ftp://ftp.ensembl.org/pub/release-101/fasta/mus_musculus/dna/Mus_musculus.GRCm38.dna.toplevel.fa.gz ftp://ftp.ensembl.org/pub/release-101/fasta/mus_musculus/dna/CHECKSUMS B2> cDNA (ENSEMBL) # human ftp://ftp.ensembl.org/pub/release-101/fasta/homo_sapiens/cdna/Homo_sapiens.GRCh38.cdna.all.fa.gz ftp://ftp.ensembl.org/pub/release-101/fasta/homo_sapiens/cdna/CHECKSUMS # mouse ftp://ftp.ensembl.org/pub/release-101/fasta/mus_musculus/cdna/Mus_musculus.GRCm38.cdna.all.fa.gz ftp://ftp.ensembl.org/pub/release-101/fasta/mus_musculus/cdna/CHECKSUMS B3> Annotation (ENSEMBL) # human ftp://ftp.ensembl.org/pub/release-101/gtf/homo_sapiens/Homo_sapiens.GRCh38.101.gtf.gz ftp://ftp.ensembl.org/pub/release-101/gtf/homo_sapiens/CHECKSUMS # mouse ftp://ftp.ensembl.org/pub/release-101/gtf/mus_musculus/Mus_musculus.GRCm38.101.gtf.gz ftp://ftp.ensembl.org/pub/release-101/gtf/mus_musculus/CHECKSUMS C> Annotation + Genome (ENSEMBL) ============================================= # ensemblコマンドを参照 ftp://ftp.ensembl.org/pub/release-101/embl/homo_sapiens/以下 ftp://ftp.ensembl.org/pub/release-101/embl/mus_musculus/以下 D> Annotation + RNA (REFSEQ) ================================================= # refseqコマンドを参照 ftp://ftp.ncbi.nlm.nih.gov/refseq/M_musculus/mRNA_Prot以下 ftp://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/mRNA_Prot以下 E> *.sra ===================================================================== curl -O ftp://ftp.ddbj.nig.ac.jp/ddbj_database/dra/sra/ByExp/sra/DRX/xxxx*.sra