Electron microscope picture of the Lambda bacteriophage.
 On the left is an icosahedral head and extending to the
right is a ribbed tail that comes a point in the last 6

NIH Lambda Lunch Meetings

An NIH Special Interest Group.

From owner-lambda_lunch-l@LIST.NIH.GOV Tue Mar 27 09:06:49 2001
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Date:         Tue, 27 Mar 2001 09:08:58 -0500 Reply-To: Robert Weisberg
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Lambda Lunch update, 3/27/01

3/29/01*:  Steve Busby "Protein-Protein Interactions at Simple and
Complex Bacterial Promoters"

4/5/01*:  Steve Salzberg:  **See Below**


5/11/01, LMG seminar.  Matt Waldor

5/18/01, LMG seminar.  Gianni Deh˛

6/13/01:  Etana Padan, WALS Lecture (co-hosted by Lambda Lunch and the
Structural Biology Interest Group)

6/14/01*:  Etana Padan

*Regular lambda lunch at 11 AM in Bldg 36, Rm 1B13.

**Steven Salzberg Director of Bioinformatics, The Institute for Genomic

This talk will highlight two new systems: (1) MUMmer, a system for
aligning whole genome sequences, and (2) improvements in the Glimmer
bacterial gene finding system.  MUMmer uses an efficient data structure
called a suffix tree, which allows it very rapidly to align sequences
containing millions of nucleotides.  Its use will be demonstrated on
several pairs of strains of bacteria, ranging from very highly
homologous organisms to much more distantly related organisms.  For
very similar organisms, such as Mycobacterium tuberculosis strains
H37Rv and CDC1551, the system allows one to quickly catalog all SNPs
and all significant insertions.  For more distantly related organisms
the system helps provide a mapping between the genes and also
identifies significant rearrangements.  For example, it was recently
used to identify major segmental duplications between the chromosomes
of Arabidopsis thaliana.  It also led to the recent discovery of a new
phenomenon in genome structure: a 2-way whole genome palindromic
alignment between E. coli and V. cholerae.

Glimmer 2.0, the newest version of the Glimmer system for microbial
gene identification, now finds approximately 97--98% of all genes in a
genome when compared with published annotation.  Glimmer uses
interpolated Markov models (IMMs) as a framework for capturing
dependencies between nearby nucleotides in a DNA sequence.  When we
consider only those genes that have significant homology to genes in
other organisms, Glimmer's accuracy rises to better than 99%.  Some
recent improvements will be described as well as an evaluation on ten
completed genomes.

Web references: http://www.tigr.org/~salzberg

To schedule seminars, contact Susan Gottesman (susang@helix.nih.gov) or
Bob Weisberg (rweisberg@nih.gov).

There are two ways to join the mailing list if you're at NIH.  (If
you're not at NIH, contact rweisberg@nih.gov to join.)  (1) Send the
following message from the computer where you usually receive mail to
"your name" by your first and last names.  (2) Go to
http://list.nih.gov/.  Browse the lists to find Lambda_Lunch-L.  Follow
the instructions to join.

This schedule is also available at

To send a message to Lambda Lunchers, address it to:
LAMBDA_LUNCH-L@LIST.NIH.GOV.  (Please use this facility sparingly.)

*     *     *     *     *     *     *     *     *     * Bldg 6B/Room
308                         Lab:  301-496-3555 6 Center Drive,
NIH                      Fax:         -0243 Bethesda, MD
20892-2785               Office:         -4448 E-mail:
rweisberg@nih.gov *     *     *     *     *     *     *     *     *

Previous Meeting Schedules:
(The dates are when the schedule was stored, not when it was announced.)

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