Alan Dombkowski, Ph.D.

Wayne State University
Assistant Professor, Institute for Environmental Health Sciences
Core Leader, Microarray and Bioinformatics Facility Core, EHS Center

Tel.

(313) 961-4943

Fax.

(313) 577-0082

Email:

domski@wayne.edu

Address:

Institute for Environmental Health Sciences

Wayne State University
2727 Second Avenue, Room 4000
Detroit, MI 48201-2654

     
Research Interests:    

·   Microarray analysis

·   Computational biology

·   Algorithm development

·   Pathway modeling

 

We are using microarray technology to investigate changes in gene expression that occur in response to environmental insult and to identify the transcriptional events associated with the progression of disease. Computational and statistical methodologies are used to analyze microarray data and interpret the results in a biological context. We are currently applying this technology to investigations of breast cancer, colon cancer, leukemia, chemical-induced carcinogenesis, DNA repair deficiencies, and cellular responses to various toxicants. Associated efforts include the analysis and modeling of transcriptional regulation (ChIP on chip), gene copy number changes (CGH arrays), and microRNA.

My research also includes the development of computational methods for protein structure analysis and protein engineering. Projects include software for the design of novel disulfide bonds in proteins (Disulfide by Design). Disulfide engineering has been used to increase the stability of proteins and to assist investigations of protein dynamics and interactions.
     
Select Publications:    

Reen RK, Dombkowski AA, Kresty LA, Cukovic D, Mele JM, Salagrama S, Nines R, Stoner GD. Effects of phenylethyl isothiocyanate on early molecular events in N-nitrosomethylbenzylamine-induced cytotoxicity in rat esophagus. Cancer Research, 2007, Jul 1;67(13):6484-92, PMID: 17616710.
 

Yang VC, Naik SS, Song H, Dombkowski AA, Crippen G, Liang JF. Construction and characterization of a t-PA mutant for use in ATTEMPTS: A drug delivery system for achieving targeted thrombolysis.
J Control Release. 2005 Dec 10;110(1):164-76. PMID: 16260060.

 

Ge Y, Dombkowski AA, Lafiura KM, Tatman D, Yedidi RS, Stout ML, Buck SA, Massey G, Becton DL, Weinstein HJ, Ravindranath Y, Matherly LH, Taub JW. Differential gene expression, GATA1 target genes and the chemotherapy sensitivity of down syndrome megakaryocytic leukemia. Blood. 2005 Oct 25; PMID: 16249385.


Dombkowski AA, Cukovic D, Novak RF. Secretome analysis of microarray data reveals extracellular events associated with proliferative potential in a cell line model of breast disease. Cancer Lett. 2005 Nov 16; PMID: 16298039.

Dombkowski AA, Thibodeau BJ, Starcevic SL, and Novak RF. Gene-specific dye bias in microarray reference designs. 2004, FEBS Letters, Vol. 560, No. 3, 120-124.  PMID: 14988009.

Lee I, Dombkowski AA, and Athey BD. Guidelines for incorporating non-perfectly matched oligonucleotides into target-specific hybridization probes for a DNA microarray. Nucleic Acids Research, 2004, Vol. 32, No. 2, 681-690.  PMID: 14757833

Wang G, Chuang L, Zhang X, Colton S, Dombkowski A, Reiners J, Diakiw A, and Xu S. The initiative role of XPC protein in cisplatin DNA damaging treatment-mediated cell cycle regulation. Nucleic Acids Research, 2004 Apr 23;32(7):2231-40.

Dombkowski AA. Disulfide by Design: A computational method for the rational design of disulfide bonds in proteins. Bioinformatics, Sep 22;19(14):1852-3, 2003. PMID: 14512360.

Kane MD, Lin H-S, Dombkowski AA, Diakiw A, Nagel AC, Flexon A, Leifheit M, Sprague JE and Hollenberg PF. Accelerating Preclinical Drug Development Using A Microarray-Based Method for Detecting Oxidative Enzyme (P450) mRNA Induction and Other Metabolic Genes in the Rat. In: Microarray Methods and Applications: Nuts & Bolts. Hardiman, G., ed. DNA Press, 2003.

Kane MD, Dombkowski AA, and Madore SJ. The emerging utility of oligonucleotide microarrays. In: Gene Cloning and Expression Technologies, Lu, Q. and Weiner, M., eds. Eaton Publishing, 1-881299-20-1, August 2002.

Anthony LC, Dombkowski AA, and Burgess RR. Using disulfide bond engineering to study conformational changes in the beta’260-309 coiled-coil region of E. coli RNA polymerase during sigma70 binding. Journal of Bacteriology, May 2002, 184:2634-2641.  PMID: 11976292.