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Protocols

DBGET specifications

Information


Unique identifier OMICS_21250
Name DBGET
Restrictions to use None
Community driven No
Data access File download, Browse, Application programming interface
User data submission Not allowed
Maintained Yes

Publication for DBGET

DBGET citations

 (16)
call_split

Transmission electron microscopic observation of body cuticle structures of phoretic and parasitic stages of Parasitaphelenchinae nematodes

2017
PLoS One
PMCID: 5473575
PMID: 28622353
DOI: 10.1371/journal.pone.0179465
call_split See protocol

[…] r each isolate following the methods of Kanzaki and Futai [] and Ye et al. [] with direct PCR sequencing. The sequences obtained were compared with those in the GenBank database (http://www.genome.jp/dbget-bin/www_bfind?genbank-today).The molecular phylogenetic relationships of the obtained species were inferred from SSU using Bayesian inference (BI) and maximum likelihood (ML) analyses. The compa […]

library_books

Expression quantitative trait loci for PI3K/AKT pathway

2017
PMCID: 5228698
PMID: 28072738
DOI: 10.1097/MD.0000000000005817

[…] All the genes mapped in the PI3K/AKT pathway of the Kyoto Encyclopedia of Genes and Genomes pathway database (http://www.genome.jp/dbget-bin/www_bget?pathway+hsa04151) were selected (Fig. ). This study used their mRNA expression data on lymphoblastoid cell lines of 373 individuals from European populations of Centre d’Etude du Po […]

library_books

Whole genome sequence analysis of serum amino acid levels

2016
Genome Biol
PMCID: 5123402
PMID: 27884205
DOI: 10.1186/s13059-016-1106-x

[…] the other two loci did not directly affect the identified amino acid levels, there is evidence suggesting that the two genes play a role in their regulation. DDC participates in tyrosine metabolism (DBGET: R02080) and mutations in it are known to causearomatic L-amino acid decarboxylase deficiency (AADC; MIM 608643). The identified amino acid 3-methoxytyrosine is one of the main biochemical marke […]

library_books

snpGeneSets: An R Package for Genome Wide Study Annotation

2016
PMCID: 5144977
PMID: 27807048
DOI: 10.1534/g3.116.034694

[…] ts are shown in Table S3. Of the 5267 genes included in the KEGG gene sets, 27 were T2D genes from the GWAS catalog. “Maturity onset diabetes of the young” with PID = 2866 (KEGG, http://www.genome.jp/dbget-bin/www_bget?hsa04950) was the only significant pathway with respective unadjusted and adjusted p-values of 6.44E−06 and 0 based on 1000 permutations (Table S3). The enrichment effect estimate s […]

library_books

Birth of Archaeal Cells: Molecular Phylogenetic Analyses of G1P Dehydrogenase, G3P Dehydrogenases, and Glycerol Kinase Suggest Derived Features of Archaeal Membranes Having G1P Polar Lipids

2016
PMCID: 5059525
PMID: 27774041
DOI: 10.1155/2016/1802675

[…] e end of 2012:Retrieving sequences by a BLAST search [] on GenBank (http://blast.ncbi.nlm.nih.gov/Blast.cgi).Retrieving archaeal sequences in KEGG Orthology KO00111 (GlpA, GlpD) (http://www.genome.jp/dbget-bin/www_bget?ko:K00111).Retrieving sequences used in Rawls et al. []. Retrieving sequences by a BLAST search [] on GenBank (http://blast.ncbi.nlm.nih.gov/Blast.cgi).Retrieving archaeal sequences […]

library_books

Innate Multigene Family Memories Are Implicated in the Viral Survivor Zebrafish Phenotype

2015
PLoS One
PMCID: 4535885
PMID: 26270536
DOI: 10.1371/journal.pone.0135483

[…] pathway box gene in http://www.kegg.jp/ssdb-bin/ssdb_best?org_gene=hsa and http://www.genome.jp/dbget-bin/www_bget?dre, to obtain the corresponding zebrafish accession numbers in http://www.genome.jp/dbget-bin/get_linkdb?-t+10+dre, following previously described methods []. Zebrafish accession numbers were extracted from the WIKI pathways at pathways http://www.wikipathways.org/index.php?title=Spe […]

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DBGET institution(s)
Institute for Chemical Research, Kyoto University, Uji, Japan; Nihon Silicon Graphics Cray K.K., Yokohama, Japan; Human Genome Center, Institute of Medical Science, The University of Tokyo, Tokyo, Japan; National Institute for Basic Biology, Okazaki, Japan; Tsukuba Research Center, Real World Computing Partnership, Tsukuba, Japan; Institute for Chemical Research, Kyoto University, Uji, Japan
DBGET funding source(s)
Supported by a Grant-in-Aid for Scientific Research on Priority Areas, “Genome Science”, from the Ministry of Education, Science, Sports and Culture of Japan.

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