Pfam

Pfam & DAS

Rob Finn26th Feb 2007

Pfam Acknowledgements

• John Tate

• Roger Pettett

• Andreas Prlic

• Andy Jenkinson

• But takes data from community…..!

Pfam New Pfam Website!

Pfam New Pfam Website!DAS Enabled

Pfam What do we provide?

• Pfam Domains

• Active Sites

• Other sequence Features

• Alignments

• Alignment features

Pfam Pfam Alignment Client

• Motivation– Simple alignment client

• Not trying to reinvent Jalview

– Markup alignment– Pfam alignments vary in size

• Paging

Pfam Pfam Alignment Client

• Example - combines alignment and features requests

Pfam Pfam Features Client

• Motivation– Include Other annotations

• Identify where we are missing domains

– Reduce data duplication– Allow tailored views– Enrich single protein data in Pfam

Pfam

Pfam Features

Client

Pfam

Other Datasets

Pfam What Code Base?

• Pfam is Perl orientated– Server

• ProServer (CPAN)

– Client• Bio::Das::Lite (CPAN)• Bio::Pfam::Drawing

– Break out?

Pfam What Can’t I Do (with Das)?

• Asynchronous requests– Return pfam_scan results via DAS

• Mapping experimental datasets to public datasets

• Serve Pfam Textual Annotation– SOAP implementation

Pfam What is Hard to Do?

• Large scale analyses

• Filter out rubbish!– But what is one man’s rubbish….

• Requirement for stylesheet?

• Standard Graphics library?

Pfam What Worries Me?

• Data deluge– Make Views….?

• Other people serve Pfam data– Confusion…..?– Redundancy

• People always want more from clients

Pfam

Thank you!