Difference between revisions of "DAS/1"

Revision as of 19:14, 18 May 2008

The DAS/1 Protocol

About DAS/1

The original version 1 specification, written by Lincoln Stein, Sean Eddy, and Robin Dowell, is the basis for a number of clients and servers. Around 400 public DAS/1 servers are currently running worldwide including WormBase, FlyBase, Ensembl, TIGR, UCSC, and UniProt. Many more private DAS sources are known to be in use. A number of websites and software applications are based on DAS.

The official DAS/1 version 1.53 specification is available at http://www.biodas.org/documents/spec.html

The specification is being actively supported, and continues to be extended in order to cater for the needs of its existing users and expand its applicability to additional arenas. For example, though originally focussed on genomic annotation, extensions have enabled DAS to be used to distribute alignment, structural and molecular interaction data.

The unofficial DAS/1 version 1.53E (extended) specification is available at http://www.dasregistry.org/spec_1.53E.jsp

DAS/1/Overview provides a glossary and list of concepts.

DAS/1 Clients

• Ensembl
• Spice
• Dasty
• Dasty2

• Older (still maintained?):
  • Geodesic
  • OmniDAS/OmniGene

DAS/1 Servers

• Affymetrix
• BioSapiens servers
• Ensembl server
• KEGG DAS
• Sanger Dazzle server
• TIGR's listing of servers
• UCSC server

How to set up a DAS/1 server

In general it is quite easy to set up DAS server. All the server implementations are easy to set up. Most server implementations allow easy setup using ready provided data-adaptors (e.g. for GFF files). For custom data simple plugins can be written to quickly provide your data via DAS.

DAS server implementations are available in several programming languages:

• Perl

Proserver
LDAS

• Java

Dazzle
MyDas

Publishing and Discovery of DAS/1 sources

See DasRegistry