1. BAC Sequencing and Annotation: Procedure Updates and New Tools
Robert Buels

2. Talk Sections New BAC sequence submission guidelines
Distributed annotation project
Tool on SGN for reserving BACs for mapping to IL lines

3. BAC Submissions Now: must submit to GenBank BEFORE submitting to SGN
Include BAC name and TOMGEN keyword
updated guidelines at
Need GenBank accessions for the ITAG pipeline

4. BAC Submissions GenBank entry must contain:
BAC name in DEFINITION field, adhering to SOL Bioinformatics Guidelines
TOMGEN keyword somewhere in COMMENT field (this makes searches for all of our sequences easy!)
Hurray, many have already done it!
Also notify SGN ( accessions, or resubmit BAC tarfiles)

5. BAC Distributed Annot. ITAG International Tomato Annotation Group
seqs (GB/EMBL/DDBJ)
RELEASE
gbrowse, datasets (CDS, pep, nr), etc.
alignments
de novo gene pred.
etc...
etc...
interpro
rpsblast
signalp
blastp

6. ITAG Distributed Pipeline
BAC Annotation
ITAG Distributed Pipeline

7. ITAG Distributed Pipeline
BAC Distributed Annot.
ITAG Distributed Pipeline
1. CAB dl seqs
2. CAB ul EST alignments
3. Ghent dl alignments, etc.
4. Ghent ul Eugene results
5. MIPS dl Eugene results
6. MIPS ul GO assignments

8. Assign IL Mapping Log in to SGN (must be sequencer)
Go to your BAC's detail page
Use select box to assign BAC for IL

9. end of main presentation

10. ITAG Pipeline Resources
The Wiki
The Status Page
The Status Service

11. The Wiki List of ITAG members (add yourself!)
List of ITAG members (add yourself!)
Full documentation of everything
Document your analysis

12. The Status Page

13. The Status Web Service List pipelines (lp) List batches (lb)
List pipelines (lp)
List batches (lb)
List analyses (la)
List sequences (lbs)
Check status of analysis (astat)