RECOMB 97: Final Program, Stud Financial Support, Babysitting, Travel

Sorin C. Istrail scistra at cs.sandia.gov
Tue Dec 10 13:07:52 EST 1996



                      RECOMB97 NEWS

                     December 6, 1996
                     ****************

 
                   recomb97 at hto.usc.edu
            http://www.cs.sandia.gov/recomb97
            http://www.eldoradohotel.com  




       Reminder: Early registration deadline (extended to Dec 20, 1996) 
                 is approaching fast!!

       THE ELDORADO HOTEL IS FULL!!! 
                 However, there are a few extra rooms available
                 at the RECOMB 97 rate. Please hurry up.
                 The overflow will go to the Hilton of Santa Fe Hotel 
                 (1-800-336-3676 or fax 505-986-6439 ask for the 
                  "RECOMB97 Conference") where we have a block of rooms 
                 reserved at identical rates. 
                 

1. RECOMB'97 Final Program

2. Available Financial support for students/graduate 
   students/postdocs. Thanks to the generous help from
   the Sloan Foundation and the U.S. Department of Energy.

3. Babysitting and Recreational Activities 

4. Travel to Santa Fe


---------------------------------------------------------

 1. RECOMB'97 Final Program


               FIRST ANNUAL INTERNATIONAL CONFERENCE ON
                    COMPUTATIONAL MOLECULAR BIOLOGY

                       January 20-23, 1997            
         
                          Eldorado Hotel
                       Santa Fe, New Mexico
                       
                          Sponsored by 
                           ACM SIGACT

                        with support from
                         SLOAN Foundation 
                      US Department of Energy

                       recomb97 at hto.usc.edu
                 http://www.cs.sandia.gov/recomb97




                       RECOMB 97 SCHEDULE
                       ******************


***************************************
Sunday January 19, 1996
***************************************

 7:00-10:00 p.m.   Reception Eldorado Hotel
              Anasazi South 

***************************************
Monday January 20, 1996
***************************************

9:00 a.m.- 5:00 p.m. Poster Session, Zia B&C 

General Session, Anasazi Ballroom 

 8:45 a.m. Opening Remarks: 

     Michael Waterman, General RECOMB Chair
                       1997 Program Committee Chair

     Sorin Istrail,    General RECOMB Vice-Chair
                       1997 Conference Chair

     Pavel Pevzner,    General RECOMB Chair
                       1998 Program Committee Chair


---------------------------------------
 9:00 Distinguished Conference Lecture Session
      Pavel Pevzner, Chair

      Rich Roberts 
      Hunting for new restriction enzymes in GeneBank
---------------------------------------

10:00  Break 

Session on Mapping
Chair: Phil Green 

10:15 Shili Lin, Terence P. Speed
      An Algorithm for Haplotype Analysis

10:40 Donna Slonim, L. Kruglyak, L. Stein, E. Lander
      Building Human Genome Maps with Radiation Hybrids

Break 11:05

Session on Genomic Rearrangements
Chair: Richard Karp 

11:15 Haim Kaplan, Ron Shamir, Robert Tarjan
      Faster and Simpler Algorithm for Sorting Signed Permutations by Reversals

11:40 David Sankoff, V. Ferretti, Joe Nadeau
      Conserved segment identification

12:05 Lunch, Eldorado Court

---------------------------------------
 1:30 Invited Lecture Session
      Pavel Pevzner, Chair
      
      Rob Lipshutz 
      DNA Probe Arrays - Accessing the Genome
---------------------------------------

 2:30 Break 

Session on New Technologies
Chair: Gene Myers 

 2:45 J. Richard Bradley, Steven Skiena
      Fabricating Arrays of Strings

 3:10 Dan Fasulo, Tao Jiang, Richard M. Karp, R. Settergren, E. C. Thayer
      An Algorithmic Approach to Multiple Complete Digest Mapping

 3:45 S. Muthukrishnan, Laxmi Parida 
      A highly effective simple combinatorial approach for constructing physical 
      maps by optical mapping 

 4:10 Break 

---------------------------------------
 4:25 Invited Lecture Session
      Sam Karlin, Chair

      Terry Speed 
      Variations on a theme of Lander and Waterman
---------------------------------------

8:00-10:00 p.m. Business Meeting, Anasazi Ballroom 


***************************************
Tuesday January 21, 1996
***************************************

9:00 a.m.- 5:00 p.m. Poster Session, Zia B&C 

General Session, Anasazi Ballroom 

---------------------------------------
 8:30 Invited Lecture Session
      Rich Roberts, Chair

      David Botstein 
      Expression Arrays: An Open Problem for Mathematicians in 
      Post-Genome Sequence Biology
---------------------------------------

 9:30 Break 

Session on Sequence Alignment
Chair: Steven Altschul 

9:45 Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller
     Progressive Multiple Alignment with Constrains

10:10 George A. Komatsoulis, Michael Waterman
     Chimeric alignment by dynamic programming: Algorithm and biological uses

10:35 Break

Session on Sequence Alignment
Chair: Temple Smith 

10:45 Gary Benson
      Sequence Alignment with Tandem Duplication

11:10 K. Reinert, Hans-Peter Lenhof, P. Mutzel, K. Mehlhorn, J. D. Kececioglu
      A Branch-and-Cut Algorithm for Multiple Sequence Alignment

11:35  Ralf Zimmer, Tom Lengauer
       Fast and Numerically Stable Parametric Alignment of Biosequences

12:00 Lunch, Eldorado Court

---------------------------------------
 1:30 Invited Lecture Session
      Mike Waterman, Chair

      Sam Karlin
      Assesing Inhomogeneities in Bacterial Long Genomic Sequences
---------------------------------------

 2:30 Break 

Session on Gene Recognition
Chair: Gary Stormo 

 2:45 Ying Xu, Edward Uberbacher
      Reference-based Gene Model Prediction on DNA Contigs

 3:10 Sing-Hoi Sze, Pavel Pevzner
      Las Vegas Algorithms for Gene Recognition: 
      Suboptimal and Error-Tolerant Spliced Alignment

 3:35 Break

Session on Protein Folding
Chair: Martin Karplus 


 3:45 Ken Dill, Andrew T. Phillips, J. Ben Rosen, 
      Protein Structure Prediction and Potential Energy 
      Landscape Analysis using Continuous Global Minimization 

 4:10 William Hart, S. Istrail
      Lattice and Off-Lattice Side Chain Models of Protein Folding:
      Linear Time Structure Prediction Better than 86% of Optimal


 4:10 Break 

---------------------------------------
 4:25 Invited Lecture Session
      Martin Karplus, Chair

      Temple Smith 
      The threading approach to the inverse protein folding problem
---------------------------------------

7:00 p.m.   Cocktails, Anasazi Ballroom 
7:30-10:00 Banquet, Anasazi Ballroom 


---------------------------------------
7:30 Stanislaw Ulam Computational Biology Address Session
     Mike Waterman,  Chair

     Eric Lander
     The Human Genome and Beyond
---------------------------------------


***************************************
Wednesday January 22, 1996
***************************************

9:00 a.m.- 5:00 p.m. Poster Session, Zia B&C 

General Session, Anasazi Ballroom 

---------------------------------------
 8:30 Invited Lecture Session
      Sorin Istrail, Chair

      Martin Karplus  
      Protein Dynamics: From the Native to the Unfolded State and Back Again
---------------------------------------

 9:30 Break 

Session on Protein Folding
Chair: Bonnie Berger

 9:45 William Hart
      On the Computational Complexity of Sequence Design Problems

10:10 Tatsuya Akutsu, S. Miyano
      On the Approximation of Protein Threading

10:45 Break 


Session on Mapping
Chair: Ron Shamir 

10:55 Amir Ben-Dor, Benny Chor
      On Constructing Radiation Hybrid Maps

11:20 Fengzhu Sun, Gary Benson, Mike Waterman
      Pooling Strategies for Establishing Physical Genome Maps Using FISH

11:45 Mutida Jain, Gene Myers
      Algorithm for Computing and Integrating Physical Maps Using Unique Probes

12:10 Lunch, Eldorado Court

---------------------------------------
 1:30 Invited Lecture Session
      Sorin Istrail, Chair

      Jonathan King 
      Problems in Understanding the Structure and Assembly of Viruses
---------------------------------------

 2:30 Break 

Session on Protein Folding
Chair: Bonnie Berger 

 2:45 Richa Agarwala,  Serafim Batzogloa, V. Dancik, 
      Scott E. Decatur, M. Farach, S. Hannenhalli, 
      S. Muthukrishnan, S. Skiena
      Local Rules for Protein Folding on  Triangular Lattice 
      and generalized Hydrophobicity in the HP Model

 3:10 Hans-Peter Lenhof
      New Contact Measures for the Protein Docking Problem

 3:35 Break 

Session on Proteins
Chair: Thomas Lengauer 

 3:45 Bonnie Berger, Mona Singh
      An Iterative Method for Improved Protein Structural Motif Recognition

 4:10 Erich Bornberg-Bauer
      Chain Growth Algorithms for HP-Type Lattice Proteins

 4:35 Hiroshi Mamitsuka
      Supervised Learning of Hidden Markov Models for Sequence Discrimination



***************************************
Thursday January 23, 1996
***************************************

General Session, Sweeney Convention Center

Session on Sequence Alignment
Chair: Martin Farach 

 8:30 Zheng Zhang, William R. Pearson, Webb Miller
      Aligning a DNA Sequence with a Protein Sequence

 8:55 Eric L. Anson, Gene Myers
      ReAligner: A Program for Refining DNA Sequence Multi-Alignments


 9:20 Lusheng Wang, Tao Jiang, Dan Gasfield
      A More Efficient Approximation Scheme for Tree Alignment
 

 9:20  Break 

Session on Genomic Rearrangements
Chair: David Sankoff 

 9:35  B. DasGupta, T. Jiang, S. Kannan, M. Li, Z. Sweekyk
       On the Complexity and Approximation of Syntenic Distance

10:00 Alberto Caprara
      Sorting by Reversals is Difficult

10:25 Break 

Session on Statistics
Chair: Bruce Weir 

10:40  Simon Heath
       The application of Markov Monte Carlo Methods to Radiation Hybrid Mapping

11:05 M. G. Reese, F. H. Eeckman, D. Kulp, D. Haussler
      Improved Splice Site Detection in Genie

11:30 Gary A. Churchill
      Monte Carlo Sequence Alignment


11:55 Lunch, Sweeney Convention Center

Session on Sequence Alignment
Chair: Webb Miller 


1:30 Benno Schwikowski, Martin Vingron
     The Deferred Path Heuristic for the Generalized Tree Alignment Problem


1:55 Tetsuo Shibuya, Hiroshi Imai
     New Flexible Approaches for Multiple Sequence Alignment

1:55 Break 

Session on Mapping
Chair: Maynard Olson


2:05 T. Christof, M. J\"unger, John Kececioglu,  P. Mutzel, G. Reinel  
     A Branch-and-cut Approach to physical mapping with end-probes 


2:30 David Wilson, David Greenberg, Cynthia Phillips
     Beyond Islands: Runs in Clone-Probe Matrices

2:55 Break

Session on Evolutionary Trees and DNA Computing
Chair: Martin Vingron

3:05 Jamie Cohen, Martin Farach
     Numerical Taxonomy on Data: Experimental Results

3:30 W. Cai, Anne Condon, R.Mm Corn, E Glasser, Z. Fei, T. Frutos, 
     Z. Guo, MG Lagally, Q. Lui, L.M. Smith, A. Theil
     The Power of Surface-Based DNA Computing

3:55 M. Ogihara, A. Ray
     Simulating Boolean Circuits on a DNA Computer 


End of RECOMB 97 



--------------------------------------------------

2. Financial support for students/graduate students/postdocs


Limited  support for students is available. We anticipate
being able to make about 22 financial awards of $400 each
for 22 students.

Please send us a one-page request to via email to 

 scistra at cs.sandia.gov 

including your affiliation, the name of your Ph.D. adviser 
(if appropriate) and the area of research that you are 
working on. We would like to select for support 
the students that will benefit the most from our meeting 
as well as those that will be able to make valuable 
contributions to the conference.


3. Babysitting and Recreational Activities

   "Santa Fe Destinations" is a company located in the 
   Eldorado Hotel. They provide professional services
   for: babysitting, airport transportation, entertainment,
   recreational activities, spouse programs etc.

   Please call Tom Williams the Director of the company for
   services related to your visit in Santa Fe.

4. Travel to Santa Fe

    http://www.eldoradohotel.com/getting_there.html

   By plane to the Albuquerque International Airport. 
   All major airlines use the airport. From there 
   "Shuttlejack" ((505) 988-2441; $20 one-way trip; 
   about one hour long) buses pick people up
   and drop them directly at the Eldorado Hotel nine
   times a day. Please call Shuttlejack and make 
   reservations. 

   The complete information about arriving at the Eldorado
   Hotel is available from their web page 

   http://www.eldoradohotel.com/getting_there.html


 We hope to see you soon in Santa Fe.

  -- Sorin Istrail
     Conference Chair   








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