The David F. Hickok Memorial Research Team
From left: Pamela, Lester, Michael and Ben

The New David F. Hickok Memorial Research Laboratory

The team at work.

Publications:

Papers on the World Wide Web:

Conservation of genetic information: A code for site-specific DNA recognition.
Proc. Natl. Acad. Sci. USA 90, 5534-5538. 1993

Molecular dynamics simulations in solvent of the glucocorticoid receptor protein in complex with a glucocorticoid response element DNA sequence.
The Journal of Biomolecular Structure and Dynamics 12:2, 249-270. October 1994

Molecular dynamics simulations of the glucocorticoid receptor protein in complex with a glucocorticoid response element in a 10 Angstrom water layer.
The World Wide Web Journal of Biology, 1-2 (Volume #1, Article #2) October, 1995

Molecular dynamics simulations of the estrogen receptor protein in complex with a nonconsensus estrogen response element DNA sequence in a 10 Angstrom water layer.
The World Wide Web Journal of Biology, 2-2 (Volume #2 Article #2) November, 1996

Genetic information is conserved between estrogen response elements and the c-DNA encoding the estrogen receptor DNA binding domain: A code for site-specific DNA recognition.
The World Wide Web Journal of Biology, 3-1 (Volume #3 Article #1) February, 1998

Journal Publications:

Reprints of the following publications are available upon request from:
Lester F. Harris Ph.D.
Abbott Northwestern Hospital Cancer Research Laboratory
800 E. 28th St.
Minneapolis, MN 55407

Harris, L., Sullivan, M. and Hickok, D. Conservation of genetic information between regulatory protein DNA binding alpha helices and their cognate operator sites: A simple code for site-specific recognition. (1990) Computers and Mathematics with Applications 20, 1-23.

Harris, L., Sullivan, M. and Hickok, D. Genetic sequences of hormone response elements share similarity with predicted alpha helices within DNA binding domains of steroid receptor proteins: A basis for site-specific recognition. (1990) Computers and Mathematics with Applications 20, 25-48.

Harris, L., Sullivan, M. and Hickok, D. Conservation of genetic information: A code for site-specific DNA recognition. (1993) Proc. Natl. Acad. Sci. USA 90, 5534-5538.
Link to hypertext version of this article.

Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D.
Molecular dynamics simulations in solvent of the glucocorticoid receptor protein in complex with a glucocorticoid response element DNA sequence. The Journal of Biomolecular Structure and Dynamics (October 1994) 12:2, 249-270.
Link to hypertext version of this article.

Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D.
Molecular dynamics simulations of the glucocorticoid receptor protein in complex with a glucocorticoid response element in a 10 Angstrom water layer.
The World Wide Web Journal of Biology, (October 1995) an international internet journal.
Link to hypertext version of this article.

Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D.
Stereochemical complementarity between regulatory proteins' DNA recognition helix amino acids and codon-anticodon nucleotides within their cognate DNA binding sites: A code for DNA site-specific recognition.
Biological Structure and Dynamics, Proceedings of the Ninth Conversation, State University of New York, Albany, NY 1995 Adenine Press 1996, pages 61-82.

Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D.
A one nanosecond molecular dynamics simulation of the glucocorticoid receptor in complex with a glucocorticoid response element in a 10 Angstrom water layer.
The Journal of Biomolecular Structure and Dynamics (December, 1995) 13:3, 423-440.

Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D.
Molecular dynamics simulations of the estrogen receptor protein in complex with a nonconsensus estrogen response element DNA sequence in a 10 Angstrom water layer.
The World Wide Web Journal of Biology, (November 1996) an international internet journal.
Link to hypertext version of this article.

Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D.
Genetic information is conserved between estrogen response elements and the c-DNA encoding the estrogen receptor DNA binding domain: A code for site-specific DNA recognition.
The World Wide Web Journal of Biology, (February 1998) an international internet journal.
Link to hypertext version of this article.

Harris, L., Sullivan, M. and Popken-Harris, P.
Molecular dynamics simulation in solvent of the estrogen receptor protein DNA binding domain in complex with a nonconsensus estrogen response element DNA sequence.
Journal of Biomolecular Structure and Dynamics (December 1997) 15, 407-430.

Popken-Harris, P., Pliml, L. and Harris, L.
Genetic analyses of MMTV in the RIII strain of mouse: evidence for a novel non-LTR retrotransposon.
22nd Congress of the International Association for Breast Cancer Research
Athens, Greece, September 25-28, 1998

Harris, L., Sullivan, M and Hatfield
Directed Molecular Evolution.
Origins of Life and Evolution of the Biosphere.
Orig Life Evol Biosph. (August 1999) 29(4):425-35

Harris, L., Sullivan, M. and Popken-Harris, P.
Molecular Dynamics Simulation in Solvent of the Phage 434 cI Repressor Protein DNA Binding Domain Amino Acids (R1-69) in Complex with its Cognate Operator (OR1) DNA Sequence.
Journal of Biomolecular Structure and Dynamics (August 1999) 17(1):1-17.

Popken-Harris, P., Pliml, L. and Harris, L.
Sequence and genetic analyses of the 3' terminus an integration sites of the RIII/Sa Mouse Mammary Tumor (MMTV) Exogenous provirus.*
Virus Genes (January 2001) 23(1):35-43.
*Sequence data from this paper submitted to GenBank and assigned accession numbers AF071010, AF263910 and AF263911.

Hartmann, B., Sullivan, M. and Harris, L.
Operator recognition by the phage 434 cI repressor: MD simulations of free and bound 50bp DNA reveal important differences between the OR1 and OR2 sites.
Biopolymers. 2003 Feb;68(2):250-64

Harris, L., Sullivan, M. and Popken-Harris, P.
A Seven Nanosecond Particle Mesh Ewald (PME) Periodic Boundary Solvated Molecular Dynamic Simulation of the Phage 434 cl Repressor Protein DNA Binding Domain in Complex with its Cognate Operator (OR2) DNA Sequence.
(Manuscript in preparation).

---

University of Minnesota Supercomputer Institute Research Reports:

The following publications are available upon request from:
Research Reports Coordinator
Minnesota Supercomputing Institute
University of Minnesota
599 Walter Library
117 Pleasant Street SE
Minneapolis, Minnesota 55455
Please send report number (e.g. UMSI 89/168) when requesting reprint.

UMSI 89/168 Harris, L., Sullivan, M. and Hickok, D. October 1989
Genetic sequences of hormone response elements share similarity with predicted alpha helices within DNA binding domains of steroid receptor proteins: A basis for site-specific recognition.

UMSI 89/169 Harris, L., Sullivan, M. and Hickok, D. October 1989
Conservation of genetic information between regulatory protein DNA binding alpha helices and their cognate operator sites: A simple code for site-specific recognition.

UMSI 92/229 Harris, L., Sullivan, M. and Hickok, D. November 1992
Conservation of genetic information: A code for site-specific DNA recognition.

UMSI 93/74 Harris, L., Sullivan, M. and Hickok, D. May 1993
The glucocorticoid receptor DNA binding domain interacts with a glucocorticoid response element and flanking nucleotides at sites of conserved genetic information.

UMSI 94/170 Harris, L., Sullivan, M. Popken-Harris, P. and Hickok, D. August 1994
Molecular dynamics simulations in solvent of the glucocorticoid receptor protein in complex with a glucocorticoid response element DNA sequence.

UMSI 95/121 Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D. May 1995
Molecular dynamics simulation of the glucocorticoid receptor in complex with a glucocorticoid response element in a 10 Angstrom water layer.

UMSI 95/153 Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D. July 1995
Stereochemical complementarity between regulatory proteins' DNA recognition helix amino acids and codon-anticodon nucleotides within their cognate DNA binding sites: A code for DNA site-specific recognition.

UMSI 95/209 Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D. October 1995
A one nanosecond molecular dynamics simulation of the glucocorticoid receptor in complex with a glucocorticoid response element in a 10 Angstrom water layer.

UMSI 96/100 Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D. May 1996
Genetic information is conserved between estrogen response elements and the c-DNA encoding the estrogen receptor DNA binding domain: A code for site-specific DNA recognition.

UMSI 96/194 Harris, L., Sullivan, M., Popken-Harris, P. and Hickok, D. October 1996
Molecular dynamics simulations of the estrogen receptor protein in complex with a nonconsensus estrogen response element DNA sequence in a 10 Angstrom water layer.

UMSI 97/66 Harris, L., Sullivan, M. and Popken-Harris, P. April 1997
Molecular dynamics simulation in solvent of the estrogen receptor protein DNA binding domain in complex with a nonconsensus estrogen response element DNA sequence.

UMSI 98/201 Harris, L., Sullivan, M. and Hatfield, D. November 1998
Directed Molecular Evolution.

UMSI 99/6 Harris, L., Sullivan, M. and Popken-Harris, P. January 1999
Molecular Dynamics Simulation in Solvent of the Phage 434 cI Repressor Protein DNA Binding Domain Amino Acids (R1-69) in Complex with its Cognate Operator (OR1) DNA Sequence

UMSI 2000/191 Harris, L., Sullivan, M. and Popken-Harris, P. October 2000
Molecular Dynamics Simulation in Solvent of the Phage 434 cI Repressor Protein DNA Binding Domain Amino Acids (R1-69) in Complex with its Cognate Operator (OR2) DNA Sequence.