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Old 07-17-2009, 07:38 AM   #1
plattsa
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Default Computational Posts at Wayne State University

POSTDOCTORAL POSITIONS: COMPUTATIONAL & SYSTEMS BIOLOGY IN FUNCTIONAL GENOMICS

The Krawetz laboratory http://compbio.med.wayne.edu of Reproductive Systems Biology is using the human protamine gene cluster and RNA delivery as a model of chromatin mediated genome reprogramming by sperm for normal human development. Defining this mechanism which is mediated by the opening chromatin domains is fundamental to understanding the first step in the selective expression of our genome. This is currently being explored at the genome-wide level. Positions as part of an interdisciplinary research team using advanced high-throughput and analysis strategies like Solexa GAII Sequencing, Genome and Expression arrays, Real-Time and Computational technologies to determine how chromatin structure and RNA regulates gene expression and early development. Self motivated individuals trained in physics, computational biology, high dimensional analysis, molecular biology, genetics and/or biochemistry, or the reproductive sciences are especially encouraged to apply. Recent publications in the areas of study include:

Computational Biology:

Platts, A. E. Johnson, G.D., Linnemann, A.K., and Krawetz, S.A. (2008) Real-Time PCR Quantification Using A Variable Reaction Efficiency Mode. Analytical Biochemistry.380:315-322.

Lalancette, C., Platts, A.E., Lu, Y., Lu, S. and Krawetz, S.A. (2008) Computational Identification Of Transcription Frameworks of Early Committed Spermatogenic Genes. Molecular Genetics and Genomics. 280:263-274.

Linnemann, A.K. and Krawetz, S.A. (In Press) Nuclear Matrix Attachment Distinguishes Cell-type Specificity. Nucleic Acids Research.
Lalancette, C., Platts, A.E., Johnson, G.D., Emery, B.R., Carrell, D.T. and Krawetz, S.A.(In Press) Identification of Human Sperm Transcripts as Candidate Markers of Male Fertility Journal of Molecular Medicine.

Platts, A.E. and Krawetz, S.A. (2009) Tools and approaches for an end-to-end expression array analysis. In: Bioinformatics for Systems Biology. Ed. Krawetz, S.A. Humana/Springer, NY 227-265.

Bioinformatics for Systems Biology. Ed. Krawetz, S.A. (2009) Humana/Springer, NY.
Reprogramming:

Martins, R. P. and Krawetz, S.A. (2007) Decondensing the protamine domain for transcription. Proceedings of the National Academy of Sciences (U.S.A.) 104:8340-8345.

Li, Y., Lalancette,C., Miller, D. and Krawetz, S.A. (2008) Characterization of Nucleohistone and Nucleoprotamine Components in the Mature Human Sperm Nucleus. Asian Journal of Andrology 10:535-541(cover feature).

Lalancette, C., Platts, A.E., Lu, Y., Lu, S. and Krawetz, S.A. (2008) Computational Identification Of Transcription Frameworks of Early Committed Spermatogenic Genes. Molecular Genetics and Genomics. 280:263-274.

Linnemann, A.K., Platts, A.E. and Krawetz, S.A. (2009) Differential Nuclear Scaffold/Matrix Attachment Marks Expressed Genes. Human Molecular Genetics. 18:645-654 (cover feature).

Sperm RNA delivery:

Ostermeier, G.C., Dix, D.J., Miller, D., Khatri, P. and Krawetz, S.A. (2002) Spermatozoal RNA profiles of normal fertile men. The Lancet. 360:773-777.

Ostermeier, G.C., Miller, D., Huntriss, J.D., Diamond, M.P. and Krawetz, S.A. (2004) Delivering spermatozoan RNA to the oocyte. Nature 429:154.

Krawetz, S.A. (2005) Paternal Contribution: new insights and future challenges. Nature Reviews Genetics 6:633-642.

Platts, A.E., Dix, D. J., Chemes, H.E., Thompson, K.E., Goodrich, R., Rockett, J. C., Rawe, V.Y., Quintana, S., Diamond, M.P., Strader, L.F. and Krawetz, S.A. (2007) Success and failure in human spermatogenesis as revealed by teratozoospermic RNAs. Human Molecular Genetics. 16:763-773.

Lalancette, C., Miller, D., Li, Y. and Krawetz, S. A. (2008) Paternal contributions: new functional insights for spermatozoal RNA. Journal of Cellular Biochemistry 35th Anniversary issue. 104:1570-1579.

Applicants should forward their curriculum vitae and three letters of reference to: Professor S. A. Krawetz, C.S. Mott Center for Human Growth and Development, Wayne State University School of Medicine, 275 E. Hancock, Detroit, MI 48201. E-mail: steve@compbio.med.wayne.edu. WSU is an Equal Opportunity/Affirmative Action Employer.
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Old 07-18-2009, 09:15 AM   #2
plattsa
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For anyone interested in talking about the posts, Steve Krawetz will be at the SSR Pittsburgh Saturday 18th - Tuesday 22nd July.
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