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RNA( 10/18 )

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ASTRA

Summary ASTRA is a database that classifies alternative splicing patterns and alternative transcriptional initiation patterns of Human, Mouse, D.melanogaster, C.elegans, A.thaliana, O. sativa. (cited from the original site)
Data type DNA-sequence

CellMontage

Summary CellMontage is a system for searching gene expression databases for cells or tissues similar to the query gene expression profile. The similarity of two profiles is computed by comparing the order of genes ranked by expression.
Data type Gene expression , Cell, Tissue

Database of genomes and transcriptional regulations for filamentous fungi

Summary The filamentous fungus, Aspergillus oryzae, plays an important role in the Japanese sake and fermentation industry, and many industrial enzymes are produced by this organism. We hope this database will provide you useful information for your research and industrial applications.
Data type DNA-sequence

Evola

Summary Evola (Evolutionary annotation database) is a database providing ortholog information of H-InvDB human genes. Evola contains orthologs among human and 14 vertebrates (chimpanzee, macaque, mouse, rat, dog, horse, cow, opossum, chicken, zebrafish, medaka, Tetraodon, and fugu). Evolutionary bioligical information such as protein multiple alignments, phylogenetic trees, transcript variants, and the degree of natural selection (dN/dS) are implemented.
Data type Comparative genomics

FLJ Human cDNA Database

Summary FLJ human cDNA database was constructed as human cDNA sequence analysis database focused on mRNA varieties caused by variations of transcription start site (TSS) and splicing. Human gene number was estimated to be 20-25 thousand. However number of human mRNA varieties was predicted to be about 100 thousand. The varieties are thought to be caused by variations of TSS and splicing. In our previous human cDNA project, about 30 thousand of FLJ human full-length sequenced cDNAs were deposited to DDBJ/GenBank/EMBL, and we obtained about 1.4 million of 5'-end sequences (5'-EST) of FLJ full-length cDNAs from about 100 kinds of cDNA libraries consist of human tissues and cells constructed by oligo-capping method.(cited from original site)
Data type DNA-sequence full length cDNA

G-compass

Summary G-compass was designed as a tool for the study of comparative genomics. It provides the data of evolutionarily conserved genomic regions and orthologous genes between human and 12 vertebrates (chimpanzee, rhesus monkey, mouse, rat, dog, cow, horse, opossum, chicken, zebrafish, medaka and Tetraodon). Information of ultraconserved elements (UCE) and copy number variable regions (CNV) are provided. Sliding window analysis and dot plot analysis are also implemented.
Data type Comparative genomics

GenoBase

Summary Scope of database (GenoBase) is to understand comprehensively the living-cell system of Escherichia coli K-12 (W3110). Until now, GenoBase is the public repository for Sequence Information, Proteome, Transcriptome, Bioinformatics, and Knowledge based on literature concerning E.coli. The results of the NEDO project was contained.
Data type Annotation

H-ANGEL

Summary H-ANGEL is a resource which provides information on human gene expression. H-ANGEL displays expression patterns of transcriptional products generated by the H-Invitational project in practical tissue categories based on tissue-specific expression data from several experimental platforms. H-ANGEL also displays information for the expression of different genes at their corresponding physical positions in the human genome. This information is linked to the corresponding transcript or locus annotation data stored in H-InvDB.
Data type Gene expression

H-DBAS

Summary H-DBAS is a database of human alternative splicing (AS) based on H-InvDB. H-DBAS offers various annotated informarion of genome-wide human AS variants. The fullness of AS variants were ensured and the representative AS variants (RASVs) were then selected. H-DBAS includes an interactive viewer constructed by Flash. In the viewer, RASVs affecting protein functions, the conservation of RASVs between human and mouse, rat, chimpanzee, macaque and dog by comparative genomics and so on can be displayed.
Data type Human and mouse full-length cDNA | Human and mouse mRNA | Rat, chimpanzee, macaque and dog RNA

H-Exp

Summary This is a DB of Human Tissue-specific expression profile data and it was integrated and coordinated with H-InvDB. This system enables (1) fast search, sort, and view for gene cluster or isoform, (2) comparison of expression pattern for gene cluster or isoform, (3) display of detailed information for gene expression and related data.
Data type Gene expression
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