Biomedical Informatics, 2008
This page lists publications by faculty and staff in the Division of Biomedical Informatics for 2008. Where possible, titles are linked to the article's PubMed abstract.
Aronow BJ. Dysfunctional genomics: toward an integrative biology of disease and health--application to IBDs. J Pediatr Gastroenterol Nutr. 2008 Apr;46 Suppl 1:E3-4.
McMahon AP, Aronow BJ, Davidson DR, Davies JA, Gaido KW, Grimmond S, et al. GUDMAP: the genitourinary developmental molecular anatomy project. J Am Soc Nephrol. 2008 Apr;19(4):667-71.
Ouyang X, Jessen WJ, Al-Ahmadie H, Serio AM, Lin Y, Shih WJ, Reuter VE, Scardino PT, Shen MM, Aronow BJ, et al. Activator protein-1 transcription factors are associated with progression and recurrence of prostate cancer. Cancer Res. 2008 Apr 1;68(7):2132-44.
Chen X, Ehrhardt WM, Halberg RB, Aronow BJ, Dove WF. Cellular expression patterns of genes upregulated in murine and human colonic neoplasms. J Histochem Cytochem. 2008 May;56(5):433-41.
Sun Y, Jia L, Williams MT, Zamzow M, Ran H, Quinn B, Aronow BJ, et al. Temporal gene expression profiling reveals CEBPD as a candidate regulator of brain disease in prosaposin deficient mice. BMC Neurosci. 2008;9:76.
Swift SM, Gaume BR, Small KM, Aronow BJ, Liggett SB. Differential coupling of Arg- and Gly389 polymorphic forms of the beta1-adrenergic receptor leads to pathogenic cardiac gene regulatory programs. Physiol Genomics. 2008 Sep 17;35(1):123-31.
Chakraborty S, Cheek J, Sakthivel B, Aronow BJ, Yutzey KE. Shared gene expression profiles in developing heart valves and osteoblast progenitor cells. Physiol Genomics. 2008 Sep 17;35(1):75-85.
Kucherlapati MH, Yang K, Fan K, Kuraguchi M, Sonkin D, Rosulek A, Lipkin M, Bronson RT, Aronow BJ, et al. Loss of Rb1 in the gastrointestinal tract of Apc1638N mice promotes tumors of the cecum and proximal colon. Proc Natl Acad Sci U S A. 2008 Oct 7;105(40):15493-8.
Mahller YY, Sakthivel B, Baird WH, Aronow BJ, Hsu YH, Cripe TP, et al. Molecular analysis of human cancer cells infected by an oncolytic HSV-1 reveals multiple upregulated cellular genes and a role for SOCS1 in virus replication. Cancer Gene Ther. 2008 Nov;15(11):733-41.
Hall ES, Poynton MR, Narus SP, Thornton SN. Modeling the distribution of Nursing Effort using structured Labor and Delivery documentation. J Biomed Inform. 2008 Apr 20.
Jegga AG, Inga A, Menendez D, Aronow BJ, Resnick MA. Functional evolution of the p53 regulatory network through its target response elements. Proc Natl Acad Sci U S A. 2008 Jan 22;105(3):944-9.
Sinha AU, Kaimal V, Chen J, Jegga AG. Dissecting microregulation of a master regulatory network. BMC Genomics. 2008;9:88.
Kamath MB, Houston IB, Janovski AJ, Zhu X, Gowrisankar S, Jegga AG, et al. Dose-dependent repression of T-cell and natural killer cell genes by PU.1 enforces myeloid and B-cell identity. Leukemia. 2008 Jun;22(6):1214-25.
Takemoto CM, Lee YN, Jegga AG, Zablocki D, Brandal S, Shahlaee A, et al. Mast cell transcriptional networks. Blood Cells Mol Dis. 2008 Jul-Aug;41(1):82-90.
Gudivada RC, Qu XA, Chen J, Jegga AG, Neumann EK, Aronow BJ. Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge. J Biomed Inform. 2008 Oct;41(5):717-29.
Kouril M, Paul JL. The Van der Waerden number $W(2,6)$ is 1132. Exp Math. 2008;17:53-61.
Huang YJ, Hang D, Lu LJ, Tong L, Gerstein MB, Montelione GT. Targeting the human cancer pathway protein interaction network by structural genomics. Mol Cell Proteomics. 2008 Oct;7(10):2048-60.
He F, Wen Y, Deng J, Lin X, Lu LJ, Jiao R, et al. Probing intrinsic properties of a robust morphogen gradient in Drosophila. Dev Cell. 2008 Oct;15(4):558-67.
Wen H, Marsolo KA, Bennett EE, Kutten KS, Lewis RP, Lipps DB, et al. Adaptive postprocessing techniques for myocardial tissue tracking with displacement-encoded MR imaging. Radiology. 2008 Jan;246(1):229-40.
Tam NN, Szeto CY, Sartor MA, Medvedovic M, Ho SM. Gene expression profiling identifies lobe-specific and common disruptions of multiple gene networks in testosterone-supported, 17beta-estradiol- or diethylstilbestrol-induced prostate dysplasia in Noble rats. Neoplasia. 2008 Jan;10(1):20-40.
Bakshi S, Zhang X, Godoy-Tundidor S, Cheng RY, Sartor MA, Medvedovic M, et al. Transcriptome analyses in normal prostate epithelial cells exposed to low-dose cadmium: oncogenic and immunomodulations involving the action of tumor necrosis factor. Environ Health Perspect. 2008 Jun;116(6):769-76.
Tang WY, Newbold R, Mardilovich K, Jefferson W, Cheng RY, Medvedovic M, et al. Persistent hypomethylation in the promoter of nucleosomal binding protein 1 (Nsbp1) correlates with overexpression of Nsbp1 in mouse uteri neonatally exposed to diethylstilbestrol or genistein. Endocrinology. 2008 Jul 31.
Borchers MT, Wesselkamper SC, Eppert BL, Motz GT, Sartor MA, Tomlinson CR, Medvedovic M, et al. Nonredundant functions of alphabeta and gammadelta T cells in acrolein-induced pulmonary pathology. Toxicol Sci. 2008 Sep;105(1):188-99.
Medvedovic M, Halbleib D, Miller ML, Ladow K, Sartor MA, Tomlinson CR. Gene expression profiling of blood to predict the onset of leukemia. Blood Cells Mol Dis. 2008 Oct 18.
Takatori A, Geh E, Chen L, Zhang L, Meller J, Xia Y. Differential transmission of MEKK1 morphogenetic signals by JNK1 and JNK2. Development. 2008 Jan;135(1):23-32.
Sinha AU, Meller J. Sensitivity analysis for reversal distance and breakpoint reuse in genome rearrangements. Pac Symp Biocomput. 2008:37-48.
Mikhaylova O, Ignacak ML, Barankiewicz TJ, Harbaugh SV, Yi Y, Maxwell PH, Schneider M, Van Geyte K, Carmeliet P, Revelo MP, Wyder M, Greis KD, Meller J. et al.
et al. The von Hippel-Lindau tumor suppressor protein and Egl-9-Type proline hydroxylases regulate the large subunit of RNA polymerase II in response to oxidative stress. Mol Cell Biol. 2008 Apr;28(8):2701-17.
Olshavsky NA, Groh EM, Comstock CE, Morey LM, Wang Y, Revelo MP, Burd C, Meller J, et al. Cyclin D3 action in androgen receptor regulation and prostate cancer. Oncogene. 2008 May 15;27(22):3111-21.
Tan M, Xia M, Cao S, Huang P, Farkas T, Meller J, et al. Elucidation of strain-specific interaction of a GII-4 norovirus with HBGA receptors by site-directed mutagenesis study. Virology. 2008 Sep 30;379(2):324-34.
Pestian JP, Matykiewicz P. Classification of suicide notes using natural language processing. Proceedings of ACL BioNLP; 2008 June: Columbus. p. 96-7.
Duch W, Matykiewicz P, Pestian JP. Neurolinguistic approach to vector representation of medical concepts. Advances in neural networks research; 2008 Jun 7. p. 3110-15.
Duch W, Matykiewicz P, Pestian J. Neurolinguistic approach to natural language processing with applications to medical text analysis. Neural Netw. 2008 Jun 7.
Kuhl J, Rosenbloom ST, Spooner SA. Improving the functionality of electronic health record systems for children's healthcare. J Healthc Qual. 2008;30:W3-5.
Jain A, Velayutham P, Wagner M, Butler DL. Accessing the tissue engineering literature: a new paradigm. Tissue Eng Part A. 2008 Mar;14(3):459-60.
