Request for Schneider Lab Papers

Form for requesting Schneider Lab papers on Molecular Information Theory and Molecular Machines

Sorry! THIS FORM DOES NOT WORK ANYMORE.

We can now handle paper requests again.

Instead of the form, for now you can send me email containing:

your name and your physical address, including COUNTRY
in a single block of text (so I can cut and paste for sending).
best email address to use. If it bounces, you won't get your package.
Indicate which package/papers you want:
- Package 1: Introduction to Molecular Information Theory
- Package 2: Information content of binding sites and sequence logos: original papers
- Package 3: Individual Information and Sequence Walkers
- Package 4: Levels 1 & 2 Molecular Machine Theory
- Other Papers
  - Chattoraj.Schneider1997
  - Schneider.Mastronarde.malign
  - Schneider.Trieste1996
  - Schneider.oxyr

You can cut and paste the above material into your email to me. Check off the items you would like.

Please review the material below (ie the broken web form) for further details.

Since only some of our papers are online, we send a set of papers to interested people and we cover the copying and postal costs. Please note that if a paper is online, there will be a link to it here. Some papers are now in HTML and so can be read more easily on the web.

This form will automatically send us your request for packages of papers.

Questions and comments on these papers can be raised on the internet news group bionet.info-theory (Frequently Asked Questions on the Biological Information Theory and Chowder Society).
Each package is sent with a cover page (PostScript version, which you can view with a PostScript viewer.)

Your Name:

Your Email:

PLEASE give your email address, so that I can confirm by email that a package is on its way. (I always do this.) Also, please be sure that your email address is correct so that I can confirm your physical address if necessary!

Your Physical Address (where we should send the papers)
Please include your name and type carriage returns in the address:

To conserve trees, please only check off the papers that interest you. Abstracts are available from PubMed.

Package 1: Introduction to Molecular Information Theory

hawaii: M. C. Shaner I. M. Blair, and T. D. Schneider", (T. N. Mudge and V. Milutinovic and L. Hunter, eds), Sequence Logos: A Powerful, Yet Simple, Tool, Proceedings of the Twenty-Sixth Annual Hawaii International Conference on System Sciences, Volume 1: Architecture and Biotechnology Computing", 813-821", IEEE Computer Society Press", Los Alamitos, CA", 1993 From the ``Alternative Approaches to Sequence Representation'' minitrack of the Biotechnology Computing Track, Hawaii International Conference on System Sciences - 26, Kauai, Hawaii - January 5-8, 1993
primer T. D. Schneider, Information Theory Primer With an Appendix on Logarithms, 1995.
Schneider1988: T. D. Schneider, G. J. Erickson and C. R. Smith, Information and entropy of patterns in genetic switches, Maximum-Entropy and Bayesian Methods in Science and Engineering, volume 2, 147-154, Kluwer Academic Publishers, Dordrecht, The Netherlands, 1988
nano2: T. D. Schneider, Sequence Logos, Machine/Channel Capacity, Maxwell's Demon, and Molecular Computers: a Review of the Theory of Molecular Machines Nanotechnology, 5, 1-18, 1994

Package 2: Information content of binding sites and sequence logos: original papers

Schneider1986: T. D. Schneider, G. D. Stormo, L. Gold, and A. Ehrenfeucht, Information content of binding sites on nucleotide sequences, J. Mol. Biol., 188, 415-431, 1986.
Schneider1989: T. D. Schneider and G. D. Stormo, Excess Information at Bacteriophage T7 Genomic Promoters Detected by a Random Cloning Technique, Nucl. Acids Res., 17, 659-674, 1989.
logopaper: T. D. Schneider and R. M. Stephens, Sequence Logos: A New Way to Display Consensus Sequences Nucl. Acids Res., 18: 6097-6100, 1990
fincd: N. D. Herman and T. D. Schneider, High Information Conservation Implies that at Least Three Proteins Bind Independently to F Plasmid incD Repeats, J. Bact., 174, 3558-3560, 1992.
splice: R. M. Stephens and T. D. Schneider Features of spliceosome evolution and function inferred from an analysis of the information at human splice sites J. Mol. Biol., 228: 1124-1136, 1992
helixrepa: P. P. Papp, D. K. Chattoraj and T. D. Schneider, Information Analysis of Sequences that Bind the Replication Initiator RepA, J. Mol. Biol., 233, 219-230, 1993.

Package 3: Individual Information and Sequence Walkers

ri: T.D. Schneider Information content of individual genetic sequences. J. Theor. Biol. 189(4): 427-441, 1997
walker: T.D. Schneider Sequence walkers: a graphical method to display how binding proteins interact with DNA or RNA sequences, Nucl. Acids Res. 25: 4408-4415 (1997)
fisinfo: P. N. Hengen, S. L. Bartram, L. E. Stewart, T. D. Schneider Information Analysis of Fis Binding Sites, Nucl. Acids Res. 25(24): 4994-5002, 1997
colonsplice: P. K. Rogan and T. D. Schneider, Using Information Content and Base Frequencies to Distinguish Mutations from Genetic Polymorphisms in Splice Junction Recognition Sites Human Mutation, 6: 74-76, 1995
rfs: P. K. Rogan, B. M. Faux and T. D. Schneider, Information analysis of human splice site mutations Human Mutation, 12: 153-171, 1998 as of 1998 May 15.

Package 4: Levels 1 & 2 Molecular Machine Theory

ccmm: T. D. Schneider, Theory of Molecular Machines. I. Channel Capacity of Molecular Machines J. Theor. Biol., 148:, 83-123, 1991
edmm: T. D. Schneider, Theory of Molecular Machines. II. Energy Dissipation from Molecular Machines J. Theor. Biol., 148: 125-137, 1991

Other Papers

Chattoraj.Schneider1997: D. K. Chattoraj and T. D. Schneider, Replication control of plasmid P1 and its host chromosome: the common ground, Prog. Nucl. Acid Res. Mol. Biol., 57: 145-186, chapter 5, Moldave (ed), 1997
Schneider.Mastronarde.malign: T. D. Schneider and D. Mastronarde, Fast multiple alignment of ungapped DNA sequences using information theory and a relaxation method, Discrete Applied Mathematics, 71: 259-268, 1996
Schneider.Trieste1996: New Approaches in Mathematical Biology: Information Theory and Molecular Machines T. D. Schneider, Julian Chela-Flores and Francois Raulin (eds), in Chemical Evolution: Physics of the Origin and Evolution of Life, Kluwer Academic Publishers Dordrecht, The Netherlands, 313-321. 1996 (from a talk in the TRIESTE CONFERENCE ON CHEMICAL EVOLUTION, IV: Physics of the Origin and Evolution of Life. Cyril Ponnamperuma Memorial, 1995)
Schneider.oxyr T. D. Schneider, Reading of DNA Sequence Logos: Prediction of Major Groove Binding by Information Theory, Meth. Enzym., 274: 445-455, 1996.

Schneider Lab.
origin before: 1996 June 9
revised: 1998 April 17
rfs became part of package 3: 1998 Oct 2
updated: 2004 Dec 13