PIUG 2009 Boston Biotechnology Meeting

Sequence Searching and Beyond:
Build a Better Searcher, Build a Better Search

Workshops

The following workshops are being offered in conjunction with the PIUG 2009 Boston Biotechnology Meeting. Please note:

• You must register separately for each workshop. Space is limited, so please register early.
• Workshop schedule is subject to change.
• See below for walking directions to each workshop from the Marriott .

Workshop Details

Directions to Venues from the Hotel

Please note:

• Each venue in the table above is linked to webbed information, including directions.
• The directions below include local travel by "T", definitely the easiest way to traverse the city.
• Click for the T maps and schedule.

AMGEN One Kendall Square, Bldg. 1000 Cambridge	From the Marriott, turn left and walk 3 blocks northwest (away from Boston). Turn right onto Hampshire Street and walk 1 block northwest (away from Boston) Returning to the hotel: From AMGEN, walk one block southeast (toward Boston) on Hampshire Street. At Broadway, turn left and continue walking 3 blocks to hotel
New Horizons Computer Learning Center 101 Arch Street, Boston The Summer Exchange Building, 3rd Floor (enter at 101 Arch St. or 34 Summer St.)	From the Marriott, walk right and turn right onto Main Street. Go west (away from Boston) 1 block to the T (red line). Take the inbound T to Downtown Crossing. Exit onto Summer Street. Macy’s Department Store is directly across the street. Enter where you see the Vinalia Restaurant and Lounge banner.
Thomson Reuters West 22 Thomson Place, Building 11 Boston, MA 02210-1212 617 856 4052	From the Marriott, walk right and turn right onto Main Street. Go west (away from Boston) 1 block to the T (red line). Take the inbound T to South Station. Take Silver Line to Courthouse Station and exit. The office is right next to the “T” Silver Line, Courthouse Station, and near the Children’s Museum.

Tuesday, February 10, 2009

DWPI Chemistry Resource (DCR) and Supporting Databases

Tuesday, February 10 Thomson Reuters West, Boston 9:30 AM

Jim Brown (FIZ)

• What is the DWPI Chemistry Resource (DCR)?
• A tour through a typical DCR database record
• Effective use of name, formula and other text search fields
• Chemical structure searching in the DWPI Chemistry Resource
• Navigating between DCR and DWPI patent family records
• Refining DWPI Chemistry Resource retrieval using ROLES
• Refining answer sets with DWPI Classification (DC), Manual Codes and IPCs
• Tips for multi-file searching DWPI/DCR with other key STN databases
• An introduction to Fragmentation Code generation using STN Express

This workshop features extensive hands-on practice time and is free-of-charge. Registration is required.

IP Search - It Takes More Than Content

Tuesday, February 10 Boston Marriott Cambridge Hotel 11:30 PM

Dr. Kamalakar Gulukota (GenomeQuest, Inc.)

It is a common concern in the IP search community to worry about content in terms of the reliability of the database being searched. After all, you could be missing something by using an incomplete database. However, while reliable content is necessary it is not a sufficient condition to validate a good search. Using GenomeQuest, we will work through real life examples from diagnostics, antibodies and other fields to illustrate that in addition to reliable content, you also need the correct search algorithms and powerful analysis capabilities for accurate, reliable search results. The workshop will highlight some new features of GenomeQuest (content-related and interface-related) which will help expedite your IP sequence searches.

Registration is free-of-charge but required. Lunch will be served.

GENESEQ on STN (DGENE) and Supporting Databases

Tuesday, February 10 Thomson Reuters West, Boston 1:30 PM

Rob Austin (FIZ)

• Overview of the DGENE database
• A tour through a typical DGENE record
• Comprehensive searching using USGENE® and DGENE
• The basics of conducting a BLAST sequence search
• Getting the best out of BLAST advanced options
• Post-processing BLAST search results using STN Express 8.x
• FASTA-based GETSIM similarity searching
• Small fragment sequence searching using GETSEQ

This workshop features extensive hands-on practice time and is free-of-charge. Registration is required.

Thursday, February 12, 2009

EPO Workshop: Meet and learn from life-science examiners from the European Patent Office

Thursday, February 12 Amgen, Cambridge 8:30 AM

Patrick Kools Wolfram Meyer

Searching and examining applications in the area of life-sciences is a challenging task. Knowing how EPO experts approach the various issues will help you to better design your own search strategies and draft applications which are fit to be handled under EPO criteria!

In our one-day workshop we will pro-actively provide you with the strategy an examiner uses, from starting an in-depth search right through until completion of the search and the examination report. Join us on the journey of opening, reading, analyzing and successfully finalizing a report. This workshop will help you to understand the way this curious species - the EPO examiner - fulfils their task, so that you can file your next application as efficiently as possible. The workshop content is based upon some of the most popular presentations at the EPO's annual showcase of search expertise - the "Search Matters" seminar. Particular attention will be given to focusing upon the classic mistakes made by US applicants when submitting applications to the EPO, based upon differences in procedure and law between the USPTO and EPO.

Agenda (Detailed Abstract)

8:30 AM		Registration
9:00 AM		Inside the mind of an EPO examiner		Learn the search process used by the EPO examiner in the biotech area and better understand the examiner search report.
10:30 AM		Break
11:00 AM		Unity of Invention		Understand the view of the EPO on Non-unity and complex applications, and how it will affect the search strategy by the EPO examiner
12:00 PM		Lunch
1:00 PM		Searching beyond patents		Searching important non-patent databases (STN, PUBMED, Internet) in the life-science/biotechnology field
2:30 PM		Break
3:00 PM		Classification codes jewels		Learn how patent examiners use classification of inventions as a powerful search tool in finding biotech prior art (ECLA)
4:00 PM		End

Registration

• $300 prior to January 28, 2009, then $350
• Limited to 70 participants

Sequence Searching on STN

Thursday, February 12 New Horizons, Boston 9:00 AM

Jim Brown, Rob Austin (FIZ-K) Lora Burgess, Gin Eggerichs (CAS)

In this session, learn how to most efficiently use the comprehensive biological sequence searching resources on STN.

• Sequence Code Match Search in CAS REGISTRY
• CAS Registry BLAST
• Sequence search techniques for DGENE, PCTGEN, and USGENE
• Techniques for combining a multi-file search

This workshop is free, but registration is required.