HIV Vaccine Database and Web Works UCSC Bid

  • Slides: 26
Download presentation
HIV Vaccine Database and Web Works UCSC Bid

HIV Vaccine Database and Web Works UCSC Bid

HIV Vaccine Database and Web Works UCSC Status Report

HIV Vaccine Database and Web Works UCSC Status Report

UCSC Genome Browser Team • genome. ucsc. edu – one of the top 3

UCSC Genome Browser Team • genome. ucsc. edu – one of the top 3 bioinformatics sites – ~1 million lines of code – over 2. 5 millions hits per week • GSID Project Team Jim Kent (lead, The Bioinformatitian) - the man who saved the Public Genome Project Fan Hsu (engineer, coordinator) Galt Barber (engineer) Bob Kuhn (QA) Erich Weiler (system admin)

Project Overview • Relational database encompassing all significant trial data • Web works involving

Project Overview • Relational database encompassing all significant trial data • Web works involving 3 primary views for accessing data Subject View Table View Sequence View

Subject View (proposed)

Subject View (proposed)

Subject View (delivered)

Subject View (delivered)

Table View (proposed)

Table View (proposed)

Table View (delivered)

Table View (delivered)

Table View (delivered)

Table View (delivered)

Sequence View (proposed)

Sequence View (proposed)

Sequence View (in progress)

Sequence View (in progress)

Select Subjects (delivered)

Select Subjects (delivered)

Milestone 0 • Signing Agreement between GSID and UCSC ü Done. (11/2006) Whew!

Milestone 0 • Signing Agreement between GSID and UCSC ü Done. (11/2006) Whew!

Milestone 1 • VAX 004 sequence and clinical data imported into My. SQL database

Milestone 1 • VAX 004 sequence and clinical data imported into My. SQL database • Prototype of homepage developed • Subscription and login pages implemented with mock credit cards • Subject View finalized ü Done. (2/10/07)

Milestone 1 b • • System maintenance* Hardware spec* Linux system install & configuration*

Milestone 1 b • • System maintenance* Hardware spec* Linux system install & configuration* UCSC deliverables install/configuration* • UCSC QA • Done. (2/10/07) * Under separate contract to Bioinformatics Professionals

Milestone 2 • Table View finalized and implemented • Real credit cards taken in

Milestone 2 • Table View finalized and implemented • Real credit cards taken in subscription • Prototype Sequence View available ü Done. (5/11/07) – also added Select Subjects

Milestone 3 • • Sequence View finalized Home page finalized Documentation finalized Database available

Milestone 3 • • Sequence View finalized Home page finalized Documentation finalized Database available for test & launch • ETA 8/15/07

First Year Status Summary ü Milestone 0 - contract ü Milestone 1 & 1

First Year Status Summary ü Milestone 0 - contract ü Milestone 1 & 1 b - Subject View ü Milestone 2 - Table View - Security/Registration/Payment - Select Subjects • Milestone 3 (8/15/07) - Sequence View

Thank You

Thank You

Demo

Demo

Security/Signup/Payment (delivered)

Security/Signup/Payment (delivered)

2 nd and 3 rd Years • 2 nd Year - VAX 003 data

2 nd and 3 rd Years • 2 nd Year - VAX 003 data - alignment tools - proteomics tools • 3 rd Year - gp 160 data - additional alignment tools - data from Keith Crandall