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 Apr  3 13:39:26 2001
Received: from mail.ncifcrf.gov (mail.ncifcrf.gov [])
 by fcs280s.ncifcrf.gov (8.10.0/8.10.0) with ESMTP id
 f33HdP716196; Tue, 3 Apr 2001 13:39:25 -0400 (EDT) Received:
from gdecker.net.nih.gov (list.nih.gov [])
 by mail.ncifcrf.gov (8.10.1/8.10.1) with ESMTP id f33Hd8R05336;
 Tue, 3 Apr 2001 13:39:08 -0400 (EDT) Received: from
list.nih.gov (list.nih.gov [])
 by gdecker.net.nih.gov (8.11.3/8.10.1) with ESMTP id
 f33HWwc01927; Tue, 3 Apr 2001 13:32:58 -0400 (EDT) Received:
from LIST.NIH.GOV by LIST.NIH.GOV (LISTSERV-TCP/IP release 1.8d) with
   spool id 7559 for LAMBDA_LUNCH-L@LIST.NIH.GOV; Tue, 3 Apr
   2001 13:32:57 -0400
Received: from helix.nih.gov (helix.nih.gov []) by
   gdecker.net.nih.gov (8.11.3/8.10.1) with ESMTP id
   f33HWvc01922 for ; Tue, 3 Apr
   2001 13:32:57 -0400 (EDT)
Received: from 6b308weisberg.nih.gov (nichd6a75.nichd.nih.gov
   by helix.nih.gov (8.11.0/8.11.0) with ESMTP id f33HWuP1196260
   for ; Tue, 3 Apr 2001 13:32:56
   -0400 (EDT)
X-Sender: weisberg@helix.nih.gov X-Mailer: QUALCOMM Windows Eudora
Version 5.0.2 Mime-Version: 1.0 Content-Type: text/plain;
charset="iso-8859-1"; format=flowed Content-Transfer-Encoding: 8bit
X-MIME-Autoconverted: from quoted-printable to 8bit by
gdecker.net.nih.gov id
Message-ID:  <>
Date:         Tue, 3 Apr 2001 13:35:59 -0400 Reply-To: Robert Weisberg
 Sender: Lambda Lunch Prokaryotic Interest Group
From: Robert Weisberg  Subject:      Lambda Lunch,
etc To: LAMBDA_LUNCH-L@LIST.NIH.GOV Content-Length:  3522 Status: RO

Lambda Lunch update, 4/3/01

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


4/19/01*:  Bob Martin:  "Protein-protein complex formation between the
transcriptional activators, MarA, SoxS or Rob and RNA-polymerase IN THE

5/11/01, LMG seminar.  Matt Waldor

5/17/01*:  Bill Burkholder "Regulation of development by replication
initiation factors and DNA damage in Bacillus subtilis"

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.)

color bar

Small icon for Theory of Molecular Machines: physics,
chemistry, biology, molecular biology, evolutionary theory,
genetic engineering, sequence logos, information theory,
electrical engineering, thermodynamics, statistical
mechanics, hypersphere packing, gumball machines, Maxwell's
Daemon, limits of computers
Schneider Lab
origin: 1998 March 31
updated: 1999 December 21 color bar
U.S. Department of Health and Human Services  |  National Institutes of Health  |  National Cancer Institute  |  USA.gov  | 
Policies  |  Viewing Files  |  Accessibility  |  FOIA