Biomedical Informatics

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Biomedical Informatics

 

Division Publications

  1. Brunskill EW, Sequeira-Lopez ML, Pentz ES, Lin E, Yu J, Aronow BJ, Potter SS, Gomez RA. Genes that confer the identity of the renin cell. J Am Soc Nephrol. 2011; 22:2213-25.
  2. Cheung D, Miles C, Kreitman M, Ma J. Scaling of the Bicoid morphogen gradient by a volume-dependent production rate. Development. 2011; 138:2741-9.
  3. Davies JA, Little MH, Aronow B, Armstrong J, Brennan J, Lloyd-Macgilp S, Armit C, Harding S, Piu X, Roochun Y, Haggarty B, Houghton D, Davidson D, Baldock R. Access and Use of the GUDMAP Database of Genitourinary Development. Methods Mol Biol. 2012; 886:185-201.
  4. Deng J, Tan L, Lin X, Lu Y, Lu LJ. Exploring the optimal strategy to predict essential genes in microbes. Biomolecules. 2012; 2:1-22.
  5. Feng X, Krishnan K, Richie DL, Aimanianda V, Hartl L, Grahl N, Powers-Fletcher MV, Zhang M, Fuller KK, Nierman WC, Lu LJ, Latge JP, Woollett L, Newman SL, Cramer RA, Jr., Rhodes JC, Askew DS. HacA-independent functions of the ER stress sensor IreA synergize with the canonical UPR to influence virulence traits in Aspergillus fumigatus. PLoS Pathog. 2011; 7:e1002330.
  6. Halgrim SR, Xia F, Solti I, Cadag E, Uzuner O. A cascade of classifiers for extracting medication information from discharge summaries. J Biomed Semantics. 2011; 2 Suppl 3:S2.
  7. He F, Ren J, Wang W, Ma J. Evaluating the Drosophila Bicoid morphogen gradient system through dissecting the noise in transcriptional bursts. Bioinformatics. 2012; 28:970-5.
  8. Huang SH, Mo D, Meller J, Wagner M. Identifying a small set of marker genes using minimum expected cost of misclassification. Artif Intell Med. 2012; 55:51-9.
  9. Johnson KB, Lee CK, Spooner SA, Davison CL, Helmke JS, Weinberg ST. Automated dose-rounding recommendations for pediatric medications. Pediatrics. 2011; 128:e422-8.
  10. Liu J, He F, Ma J. Morphogen gradient formation and action: insights from studying Bicoid protein degradation. Fly (Austin). 2011; 5:242-6.
  11. Lu TX, Hartner J, Lim EJ, Fabry V, Mingler MK, Cole ET, Orkin SH, Aronow BJ, Rothenberg ME. MicroRNA-21 limits in vivo immune response-mediated activation of the IL-12/IFN-gamma pathway, Th1 polarization, and the severity of delayed-type hypersensitivity. J Immunol. 2011; 187:3362-73.
  12. Lu TX, Sherrill JD, Wen T, Plassard AJ, Besse JA, Abonia JP, Franciosi JP, Putnam PE, Eby M, Martin LJ, Aronow BJ, Rothenberg ME. MicroRNA signature in patients with eosinophilic esophagitis, reversibility with glucocorticoids, and assessment as disease biomarkers. J Allergy Clin Immunol. 2012; 129:1064-75 e9.
  13. Lynch JM, Maillet M, Vanhoutte D, Schloemer A, Sargent MA, Blair NS, Lynch KA, Okada T, Aronow BJ, Osinska H, Prywes R, Lorenz JN, Mori K, Lawler J, Robbins J, Molkentin JD. A Thrombospondin-Dependent Pathway for a Protective ER Stress Response. Cell. 2012; 149:1257-68.
  14. Ma J. Transcriptional activators and activation mechanisms. Protein Cell. 2011; 2:879-88.
  15. Ma X, Gao F, Rusie A, Hemingway J, Ostmann AB, Sroga JM, Jegga AG, Das SK. Decidual cell polyploidization necessitates mitochondrial activity. PLoS One. 2011; 6:e26774.
  16. Pai AL, Rausch J, Tackett A, Marsolo K, Drotar D, Goebel J. System for integrated adherence monitoring: real-time non-adherence risk assessment in pediatric kidney transplantation. Pediatr Transplant. 2012; 16:329-34.
  17. Pestian JP, Matykiewicz P, Linn-Gust M, South B, Uzuner O, Wiebe J, Cohen KB, Hurdle J, Brew C. Sentiment Analysis of Suicide Notes: A Shared Task. Biomed Inform Insights. 2012; 5:3-16.
  18. Phatak M, Adamczak R, Cao B, Wagner M, Meller J. Solvent and lipid accessibility prediction as a basis for model quality assessment in soluble and membrane proteins. Curr Protein Pept Sci. 2011; 12:563-73.
  19. Powell AE, Wang Y, Li Y, Poulin EJ, Means AL, Washington MK, Higginbotham JN, Juchheim A, Prasad N, Levy SE, Guo Y, Shyr Y, Aronow BJ, Haigis KM, Franklin JL, Coffey RJ. The pan-ErbB negative regulator Lrig1 is an intestinal stem cell marker that functions as a tumor suppressor. Cell. 2012; 149:146-58.
  20. Ren J, Jegga AG, Zhang M, Deng J, Liu J, Gordon CB, Aronow BJ, Lu LJ, Zhang B, Ma J. A Drosophila model of the neurodegenerative disease SCA17 reveals a role of RBP-J/Su(H) in modulating the pathological outcome. Hum Mol Genet. 2011; 20:3424-36.
  21. Sardana D, Zhu C, Zhang M, Gudivada RC, Yang L, Jegga AG. Drug repositioning for orphan diseases. Brief Bioinform. 2011; 12:346-56.
  22. Spellman Kennebeck S, Timm N, Farrell MK, Spooner SA. Impact of electronic health record implementation on patient flow metrics in a pediatric emergency department. J Am Med Inform Assoc. 2012; 19:443-7.
  23. Srinivasan R, Ozhegov E, van den Berg YW, Aronow BJ, Franco RS, Palascak MB, Fallon JT, Ruf W, Versteeg HH, Bogdanov VY. Splice variants of tissue factor promote monocyte-endothelial interactions by triggering the expression of cell adhesion molecules via integrin-mediated signaling. J Thromb Haemost. 2011; 9:2087-96.
  24. Thomas HE, Mercer CA, Carnevalli LS, Park J, Andersen JB, Conner EA, Tanaka K, Matsutani T, Iwanami A, Aronow BJ, Manway L, Maira SM, Thorgeirsson SS, Mischel PS, Thomas G, Kozma SC. mTOR Inhibitors Synergize on Regression, Reversal of Gene Expression, and Autophagy in Hepatocellular Carcinoma. Sci Transl Med. 2012; 4:139ra84.
  25. van Berlo JH, Elrod JW, Aronow BJ, Pu WT, Molkentin JD. Serine 105 phosphorylation of transcription factor GATA4 is necessary for stress-induced cardiac hypertrophy in vivo. Proc Natl Acad Sci U S A. 2011; 108:12331-6.
  26. Wu C, Xia F, Deleger L, Solti I. Statistical machine translation for biomedical text: are we there yet?. AMIA Annu Symp Proc. 2011; 2011:1290-9.
  27. Xie G, Zhang H, Du G, Huang Q, Liang X, Ma J, Jiao R. Uif, a large transmembrane protein with EGF-like repeats, can antagonize Notch signaling in Drosophila. PLoS One. 2012; 7:e36362.
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