Education

Professional Experience

Publications

2010

• Freudenberg JM, Sivaganesan S, Wager M, and Medvedovic M. A semi-parametric Bayesian model for unsupervised differential co-expression analysis. BMC Bioinformatics 11:234. 2010. (Support page).
• Shinde K, Phatak M, Freudenberg JM, Chen J, Li Q, Vineet JK, Hu Z, Ghosh K, Meller J, and Medvedovic M. Genomics Portals: integrative web-platform for mining genomics data. BMC Genomics 11:27. 2010.

• Freudenberg JM, Joshi VK, Hu Z, and Medvedovic M. CLEAN: CLustering Enrichment ANalysis. BMC Bioinformatics 10:234. 2009. (Support page).

• Medvedovic M, Gear R, Freudenberg JM, Schneider J, Bornschein R, Yan M, Mistry MJ, Hendrix H, Karyala S, Halbleib D et al. Influence of Fatty Acid Diets on Gene Expression in Rat Mammary Epithelial Cells. Physiological Genomics 38: 80-88. 2009.

• Kaiser S, Park YK, Franklin JL, Halberg RB, Yu M, Jessen WJ, Freudenberg J, Chen X, Haigis K, Jegga AG, Kong S, Sakthivel B, Xu H, Reichling T, Azhar M, Boivin GP, Roberts RB, Bissahoyo AC, Gonzales F, Bloom GC, Eschrich S, Carter SL, Aronow JE, Kleimeyer J, Kleimeyer M, Ramaswamy V, Settle SH, Boone B, Levy S, Graff JM, Doetschman T, Groden J, Dove WF, Threadgill DW, Yeatman TJ, Coffey RJ Jr, and Aronow BJ. Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer. Genome Biology 8(7): R131. 2007.

• Ray M, Dharmarajan S, Freudenberg J, Zhang W, and Patterson GA. Expression profiling of human donor lungs to understand primary graft dysfunction after lung transplantation. American Journal of Transplantation 7(10):2396-2405. 2007.

2005

• Barnes M, Freudenberg J, Thompson S, Aronow B, Pavlidis P. Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression analysis platforms. Nucleic Acids Research 33(18):5914-23. 2005

2004

• Freudenberg J, Boriss H, and Hasenclever D. Comparison of preprocessing procedures for oligo-nucleotide micro-arrays by parametric bootstrap simulation of spike-in experiments.Methods of Information in Medicine 43(5):434-8. 2004.