Abstract
We have developed a new approach to MS/MS protein identification, based on the idea of representing protein sequences as manifolds of a multidimensional space (peptidic space). This representation makes it possible to quickly compare a particular peptidic space manifold with a collection of mass spectra. A statistical ensemble can be constructed from the results of comparing a large number of peptidic space manifolds against a collection of mass spectra. The ensemble can then be used to determine how likely it is that a particular manifold could generate the observed collection of mass spectra at random, resulting in an expectation value for each manifold. Manifolds that generate very low expectation values can be reliably assigned to the collection of mass spectra, with well-defined probabilities.

Using this approach, we have developed an MS/MS search engine, which was written specifically for the purpose of automating LC-MS/MS protein identification in genomes. The search engine can search protein sequence or expressed sequence tag data as well as complete or partial genomes, e.g., S. cerevisiae, D. melanogaster, or H. sapiens. Genome searching can be useful for the experimental confirmation of exon/intron regions and the discovery of alternately spliced gene products.
 

Background
(not available yet)

Meeting details

Date:	Tuesday	February 20, 2001
Time:	6:00 pm	Social hour, registration (no-host cocktails)
	7:00 pm	Dinner
	8:15 pm	Presentation (free, no reservations required)
Dinner:	Choice of:	Chicken, beef & vegetable fajitas, served family style
	includes	various side dishes, desert, coffee, etc.
Cost:	$25.00	BAMS members.  Reservations required by noon Thursday  2/15/01
	$35.00	Non-members.  Reservations required by noon Thursday  2/15/01
	$15.00	Students only.  Reservations required by noon Thursday  2/15/01

Note: 2001 dues need to be paid to obtain member price.  Dues ($20) may be paid at the meeting

Maps & directions
Chevys Mexican Restaurant
2907 El Camino Real
Redwood City, CA
(650) 367-6892
map
 
 

Want to be a judge?  The Intel International Science & Engineering Fair 2001 needs you! See the call for judges and/or their web site.

Other meeting notices received by BAMS:
2nd Workshop on Harsh-Environment Mass Spectrometry, 3/18/2001 (http://www.marine.usf.edu/mass_spec/HEMSconf.htm)
 

The San Francisco Bay Area Mass Spectrometry discussion group was formed in 1980 to provide a regular gathering for people interested in mass spectrometry and allied topics. BAMS currently has a membership of about 280 individual and 20 corporate members, and meets 8-10 times per year for a midweek dinner and lecture.  Meetings attract between 30 and 90 people, and are held at a restaurant or hotel in the bay area convenient for our speaker.  We usually convene at 6:00pm for cocktails, dinner at 7:00pm, and lecture at 8:15pm.
 

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Last update: 2/5/01.