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Data name ⇅	Database name ⇅	DOI ⇅	Description of data contents ⇅	Data acquisition method ⇅	Data analysis method ⇅	Data detail
DRA_accession_tables	FANTOM5	10.18908/lsdba.nbdc01389-014.V003	Accession number list of FANTOM5 sample data registered in DRA (http://trace.ddbj.nig.ac.jp/dra/index.html).	DRA		Data detail open_in_full
Enhancers	FANTOM5	10.18908/lsdba.nbdc01389-004.V003	Human and mouse enhancers identified by measuring RNA transcripts amount with CAGE in phase1.0 and phase2.0		CAGE	Data detail open_in_full
Gene_level_expression	FANTOM5	10.18908/lsdba.nbdc01389-015.V003	Those tables shows the number of CAGE tags mapped on the same gene in each sample (human/mouse). The "counts" tables mean simple tabulation of tags and the "tpm" tables mean "TPM" (Transcripts Per Million) with RLE (Relative Log Expression).		Simple tabulation, RLE (Relative Log Expression)	Data detail open_in_full
HeliscopeCAGE sequencing, Delve mapping and CAGE TSS aggregation	FANTOM5	10.18908/lsdba.nbdc01389-001.V003	Time course and snapshot data by HeliScopeCAGE "basic" directory contains the following: Subdirectories with "CAGEScan" in end (only human) 00_.assay_sdrf.txt: Experimental information for each sample (tab-delimited text) .bam: Binary read mapping results (BAM format) .bam.bai: Indexes of BAM files .3prime.fq.gz: 3' sequences in CAGEscan tags (FASTQ format) .5prime.fq.gz: 5' sequences in CAGEscan tags (FASTQ format) .clusters.bed.gz Clustering results with CAGEscan (standard BED12 format). 4th column shows the CAGE tag name that represents the cluster and 5th column shows the number of pairs that constitute the cluster. .pairs.bed.gz Read pairs mapped with CAGEscan (standard BED12 format). 4th column shows the pair's name and 5th column shows the total mapping quality value of reads. Subdirectories expect above 00_.assay_sdrf.txt: Experimental information for each sample (tab-delimited text) .bam: Binary read mapping results (BAM format) .bam.bai: Indexes of BAM files .ctss.bed.gz: TSS (CTSS) identified by CAGE tag analysis (BED format) .rdna.fa.gz: rDNA sequences (FASTA format)		HeliScopeCAGE (http://fantom.gsc.riken.jp/protocols/heliscope.html) CAGEscan(http://fantom.gsc.riken.jp/protocols/nanocage.html) Delve (Alignment software for short read) (http://fantom.gsc.riken.jp/jp/software/)	Data detail open_in_full
Pathway enrichment and co-expression cluster analysis	FANTOM5	10.18908/lsdba.nbdc01389-003.V003	Pathway enrichment and co-expression cluster analysis		Co-expression cluster analysis Gostat enrichment analysis Pathway enrichment analysis	Data detail open_in_full
Data name	Database name	DOI	Description of data contents	Data acquisition method	Data analysis method	Data detail