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List of Data Metadata
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Data name ⇅ Database name ⇅ DOI ⇅ Description of data contents ⇅ Data file ⇅ Simple search URL ⇅ Data acquisition method ⇅ Data analysis method ⇅ Number of data entries ⇅ Data detail
Sample information RED II INAHO 10.18908/lsdba.nbdc01557-003

Sample information used as control sample or target sample.

 redii_inaho_sample.zip
(11.4 KB) 		http://togodb.biosciencedbc.jp/togodb/view/redii_inaho_sample#en

The sample was used in the experiment as control sample or target sample.

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 1,232 entries
Data detail open_in_full
Data Relationship Matrix RefEx

A table of the relationship among different type of data.

 refex_data_relationship_matrix.zip
(1 KB) 		http://togodb.biosciencedbc.jp/togodb/view/refex_data_relationship_matrix#en

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Data detail open_in_full
Gene Expression Data RefEx

Gene expression data collected by EST, GeneChip, CAGE, or RNA-seq Each data is named "RefEx_expression_[experimental method][the number of tissue classes]_[species]" in general.
e.g. RefEx_expression_EST10_human

Nevertheless, some data collected by CAGE are named "RefEx_expression_CAGE_all_[species]".
e.g. RefEx_expression_CAGE_all_human

 refex_expression01_cage10_human_prjdb1099.zip
(908 KB) 		http://togodb.biosciencedbc.jp/togodb/view/refex_data_relationship_matrix#en

EST
human,mouse,rat: INSD
GeneChip
human: GSE7307（Human body index - transcriptional profiling）
mouse: GSE10246（GNF Mouse GeneAtlas V3）
rat: GSE952（Transcriptome analysis in rat）
CAGE
human: PRJDB3010 (A promoter level mammalian expression atlas (human, ChIP-Seq))
mouse: PRJDB1100 (FANTOM5 Mouse CAGE)
RNA-seq
human: PRJEB2445 (RNA-Seq of human individual tissues and mixture of 16 tissues (Illumina Body Map))
mouse: PRJNA30467（Mapping and quantifying mammalian transcriptomes by RNA-Seq; brain, liver, muscle）

https://github.com/dbcls/RefEx/tree/master/Rawdata_Processing

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Data detail open_in_full
ID Relation Table RefEx

Relation table of Gene IDs.

 refex_id_relation_human.zip
(388 KB) 		http://togodb.biosciencedbc.jp/togodb/view/refex_data_relationship_matrix#en

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Data detail open_in_full
Sample Annotations RefEx

Sample annotations provided by each project.
Columns are different in CAGE data and GeneChip data.

 refex_sample_ann01_cage_human_prjdb1099
(27 KB) 		http://togodb.biosciencedbc.jp/togodb/view/refex_data_relationship_matrix#en

Provided by each project

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Data detail open_in_full
Data name Database name DOI Description of data contents Data file Simple search URL Data acquisition method Data analysis method Number of data entries Data detail