SilkDB

SilkDB
Name	SilkDB
URL	silkworm.genomics.org.cn/
Contact	xiaqy@swu.edu.cn
Data_types	Gene expression
Resources/Tools	Similarity search, Multisequence alignment
Citation	PubMedID:19793867

SilkDB (ver 2) is a comprehensive database of genomic data for the domesticated silkworm, Bombyx mori, including genome assembly, gene annotation, chromosomal mapping, orthologous relationships and experiment data, such as microarray expression data, Expressed Sequence Tags (ESTs) and corresponding references.

Currently, SilkDB contains information for 1 organisms:

Species	Common name	Description
Bombyx mori	Domestic silkworm; mulberry silkworm

Analysis and Tools:

• BLAST: [BLAST2 with gaps, all versions]
• bl2seq: [BLAST 2 sequences]
• SilkMap [a tool to map protein or nucleotide sequence on silkworm chromosomes]
• Wego [Gene Ontology lookup]
• BmArraymap [Bombyx mori microarray database]
• Clustalw [multiple alignment]
• Cap3 [contig assembly program]
• SMS [The Sequence Manipulation Suite is a collection of JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences. It is commonly used by molecular biologists, for teaching, and for program and algorithm testing.]
• WISE2 [comparisons of protein/DNA sequences]
• EMBOSS [collection of tools for manipulating sequences]

References