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SIP Publications with Tom Schneider

Thomas D. Schneider ¹

version = 1.03 of sippublications.tex 2008 Jul 15

$$c = {\pi}r^2$$ (1)

$$r = \sqrt{\frac{\pi}{c}}$$ (2)

This is a list of publications by students in the Werner H. Kirsten Student Intern Program.

• R. Mike Stephens [1,2,3]

• Nate Herman [4]

• Mark Shaner [5]

• Stacy Bartram [6]

• Elaine Bucheimer [7]

• Ryan Shultzaberger [8,7,9,10,11].

• Karen Lewis [12,10].

Bibliography

1

T. D. Schneider and R. M. Stephens.
Sequence logos: A new way to display consensus sequences.
Nucleic Acids Res., 18:6097-6100, 1990.
http://www.ccrnp.ncifcrf.gov/~toms/paper/logopaper/.

2

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.
http://www.ccrnp.ncifcrf.gov/~toms/paper/splice/.

3

P. K. Rogan, J. J. Salvo, R. M. Stephens, and T. D. Schneider.
Visual display of sequence conservation as an aid to taxonomic classification using PCR amplification.
In Clifford A. Pickover, editor, Visualizing Biological Information, pages 21-32, Singapore, 1995. World Scientific.

4

N. D. Herman and T. D. Schneider.
High information conservation implies that at least three proteins bind independently to F plasmid incD repeats.
J. Bacteriol., 174:3558-3560, 1992.

5

M. C. Shaner, I. M. Blair, and T. D. Schneider.
Sequence logos: A powerful, yet simple, tool.
In T. N. Mudge, V. Milutinovic, and L. Hunter, editors, Proceedings of the Twenty-Sixth Annual Hawaii International Conference on System Sciences, Volume 1: Architecture and Biotechnology Computing, pages 813-821, Los Alamitos, CA, 1993. IEEE Computer Society Press.
http://www.ccrnp.ncifcrf.gov/~toms/paper/hawaii/.

6

P. N. Hengen, S. L. Bartram, L. E. Stewart, and T. D. Schneider.
Information analysis of Fis binding sites.
Nucleic Acids Res., 25(24):4994-5002, 1997.
http://www.ccrnp.ncifcrf.gov/~toms/paper/fisinfo/.

7

R. K. Shultzaberger, R. E. Bucheimer, K. E. Rudd, and T. D. Schneider.
Anatomy of Escherichia coli Ribosome Binding Sites.
J. Mol. Biol., 313:215-228, 2001.
http://www.ccrnp.ncifcrf.gov/~toms/paper/flexrbs/.

8

R. K. Shultzaberger and T. D. Schneider.
Using sequence logos and information analysis of Lrp DNA binding sites to investigate discrepancies between natural selection and SELEX.
Nucleic Acids Res., 27(3):882-887, 1999.
http://www.ccrnp.ncifcrf.gov/~toms/paper/lrp/.

9

R. K. Shultzaberger, L. R. Roberts, I. G. Lyakhov, I. A. Sidorov, A. G. Stephen, R. J. Fisher, and T. D. Schneider.
Correlation between binding rate constants and individual information of E. coli Fis binding sites.
Nucleic Acids Res., 35:5275-5283, 2007.
http://www.ccrnp.ncifcrf.gov/~toms/paper/fisbc/ http://dx.doi.org/10.1093/nar/gkm471.

10

Z. Chen, K. A. Lewis, R. K. Shultzaberger, I. G. Lyakhov, M. Zheng, B. Doan, G. Storz, and T. D. Schneider.
Discovery of Fur binding site clusters in Escherichia coli by information theory models.
Nucleic Acids Res., 35:6762-6777, 2007.
http://www.ccrnp.ncifcrf.gov/~toms/papers/fur/.

11

R. K. Shultzaberger, Zehua Chen, Karen A. Lewis, and T. D. Schneider.
Anatomy of Escherichia coli $\sigma^{70}$ promoters.
Nucleic Acids Res., 35:771-788, 2007.
http://www.ccrnp.ncifcrf.gov/~toms/paper/flexprom/.

12

M. Zheng, X. Wang, B. Doan, K. A. Lewis, T. D. Schneider, and G. Storz.
Computation-Directed Identification of OxyR-DNA Binding Sites in Escherichia coli.
J. Bacteriol., 183:4571-4579, 2001.

About this document ...

SIP Publications with Tom Schneider

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Footnotes

... Schneider¹

National Cancer Institute at Frederick, Center for Cancer Research Nanobiology Program Molecular Information Theory Group P. O. Box B, Frederick, MD 21702-1201. (301) 846-5581 (-5532 for messages), fax: (301) 846-5598, email:

toms@ncifcrf.gov

http://www.ccrnp.ncifcrf.gov/~toms/