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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
tRNA sequence data, annotation data and curation data	tRNADB-CE	10.18908/lsdba.nbdc00720-001	Data of tRNA search results and curation data. Three prediction programs (tRNAScan-SE, Aragorn and tRNA finder) were used together to search tRNA genes. If the prediction results did not match, curation was carried out by experts. The following three types of determinations are used for determining the results. - reliable tRNA gene　("circle" mark at the original website.) - ambiguous case　("triangle" mark at the original website.) - not tRNA gene　("x" mark at the original website.) The data are classified into nine types as follows according to sources. - Prokaryotic complete genome: 95,512 entries. - Prokaryotic draft genome (WGS): 196,032 entries. - Plant: 1,608 entries. - Fungus: 2,773 entries. - Virus: 151 entries. - Phage: 962 entries. - Chloroplast: 4,376 entries. - Environmental sample (ENV) from GenBank: 101,837 entries. - Environmental sample (ENV) from Sequence Read Archive: 54,872 entries. The number of data is 458,123 in total. The data are given in a CSV format text file.	trnadb_ce.zip (22.7 MB)	http://togodb.biosciencedbc.jp/togodb/view/trnadb_ce#en	-	Three prediction programs (tRNAScan-SE, Aragorn and tRNA finder) were used together to search tRNA genes. If the prediction results did not match, curation was carried out by experts.	458,123 entries	Data detail open_in_full
Protein	Trypanosomes Database	10.18908/lsdba.nbdc01243-001	It is a summaly table of protein information; such as sequences of mRNA and Amino acids, functions and metabolic pathways related to the protein. There is also information of candidate inhibitor of the protein.	trypanosome.zip (1.4 KB)	http://togodb.biosciencedbc.jp/togodb/view/trypanosome#en	-	-	17 entries	Data detail open_in_full
Core Data of Yeast Interacting Proteins Database (Annotation Updated Version)	Yeast Interacting Proteins Database	10.18908/lsdba.nbdc00742-001	Highly reproducible interaction data in the Yeast Interacting Proteins Database with the "IST hit" (to be described in the table below) of 3 or more. Annotation (gene name and description) is updated by the SGD (Saccharomyces Genome Database;http://www.yeastgenome.org/, August 15, 2009). The number of data is 841. The data are given in a CSV format text file.	core_updated.zip (77KB)	http://togodb.biosciencedbc.jp/togodb/view/yipd_core_updated#en	Yeast two-hybrid method. (Fields, S. & Song, O. K. (1989) Nature (London) 340, 245-246.)	As the indicator of reliability of the interactions obtained by the experiment, the literature information described about the yeast proteins and their interactions are required. Several sources including YPD (Yeast Proteome Database, Costanzo, M. C., Hogan, J. D., Cusick, M. E., Davis, B. P., Fancher, A. M., Hodges, P. E., Kondu, P., Lengieza, C., Lew-Smith, J. E., Lingner, C., et al. (2000) Nucleic Acids Res. 28, 73-76.) are used for literature collection.	841 interactions	Data detail open_in_full
Core Data of Yeast Interacting Proteins Database (Original Version)	Yeast Interacting Proteins Database	10.18908/lsdba.nbdc00742-003	Highly reproducible interaction data in the Yeast Interacting Proteins Database with the "IST hit" (to be described in the table below) of 3 or more. The gene information (gene name and description) is the data at the time the paper(*1) was published. The number of data is 841. The data are given in a CSV format text file.	ore_original.zip (37KB)	http://togodb.biosciencedbc.jp/togodb/view/yipd_core#en	-	-	-	Data detail open_in_full
Full Data of Yeast Interacting Proteins Database (Annotation Updated Version)	Yeast Interacting Proteins Database	10.18908/lsdba.nbdc00742-002	The entire data in the Yeast Interacting Proteins Database. Annotation (gene name and description) is updated by the SGD (Saccharomyces Genome Database;http://www.yeastgenome.org/, August 15, 2009). The number of data is 4,549. The data are given in a CSV format text file.	full_updated.zip (372KB)	http://togodb.biosciencedbc.jp/togodb/view/yipd_full_updated#en	Yeast two-hybrid method. (Fields, S. & Song, O. K. (1989) Nature (London) 340, 245-246.)	As the indicator of reliability of the interactions obtained by the experiment, the literature information described about the yeast proteins and their interactions are required. Several sources including YPD (Yeast Proteome Database, Costanzo, M. C., Hogan, J. D., Cusick, M. E., Davis, B. P., Fancher, A. M., Hodges, P. E., Kondu, P., Lengieza, C., Lew-Smith, J. E., Lingner, C., et al. (2000) Nucleic Acids Res. 28, 73-76.) are used for literature collection.	841 interactions	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