Publications

Recent Publications

  • Viswanathan GA, Nudelman G, Patil S, and Sealfon SC. BioPP: A Tool for Web-publication of Biological Networks. BMC Bioinformatics. 2007 May 22;8:168. PMID: 17519033
  • Coppey M, Berezhkovskii S, Sealfon SC, and Shvartsman S. Time and length scales of autocrine signals in three dimensions. Biophysical Journal. 2007 Sep 15;93(6):1917-22. PMID: 17720734
  • Fernandez-Sesma A and Moran TM. Role of the influenza virus nonstructural 1 protein in evasion of immunity. Future Virology. 2007. 2(4): 389-399.
  • Yount JS, Moran TM, and López CB. Cytokine-Independent Upregulation of MDA5 in Viral Infection. Journal of virology. 2007 Jul;81(13):7316-9. PMID: 17475649
  • Hu J, Sealfon SC, Hayot F, Jayaprakash C, Kumar M, Pendleton AC, Ganee A, Fernandez-Sesma A, Moran TM, and Wetmur JG. Chromosome-specific and noisy IFNB1 transcription in individual virus-infected human primary dendritic cells. Nucleic Acids Research. 2007;35(15):5232-41. PMID: 17675303
  • Qiao L, Nachbar RB, Kevrekidis IG, and Shvartsman SY. Bistability and oscillations in the Huang-Ferrell model of MAPK signaling. PLOS computational biology. 2007 Sep;3(9):1819-26. PMID: 17907797
  • Ge Y, Sealfon SC, Tseng CH, and Speed TP. A Holm-type procedure controlling the false discovery rate. Statistics & Probability Letters. 2007, 7(12):1756-1762.
  • Fernandez-Sesma A. The influenza virus NS1 protein: inhibitor of innate and adaptive immunity. Infectious disorders drug targets. 2007 Dec;7(4):336-43. PMID: 18220965
  • Viswanathan GA, Seto J, Patil S, Nudelman G, and Sealfon SC. Getting started in biological pathway construction and analysis. PLoS computational biology. 2008 Feb;4(2):e16 PMID: 18463709
  • Ge Y, Sealfon SC, and Speed TP. Some step-down procedures controlling the false discovery rate under dependence. Statistica Sinica. 2008 18(3):881-904. PMID: 19018297
  • Berezhkovskii AM, Coppey M, Sealfon SC, and Shvartsman SY. Cell-to-cell communication: time and length scales of ligand internalization in cultures of suspended cells. The Journal of chemical physics. 2008 Jun 14;128(22):225102. PMID: 18554059
  • Phipps-Yonas H, Jiang K, Hartmann BM, Ge Y, Sealfon SC, and Moran TM. A comprehensive evaluation of human plasmacytoid dendritic cells using small volumes of human blood. Journal of interferon & cytokine research. 2008 Aug;28(8):501-7. PMID: 18729740
  • Kleinstein SH. Getting Started in Computational Immunology. PLoS computational biology. 2008 Aug 29;4(8):e1000128. PMID: 18769677
  • Arsov I, Li X, Matthews G, Coradin J, Hartmann BM, Simon AK, Sealfon SC, and Yue Z. BAC-mediated transgenic expression of fluorescent autophagic protein Beclin 1 reveals a role for Beclin 1 in lymphocyte development. Cell Death and Differentation. 2008 Sep;15(9):1385-95. PMID: 18451870
  • Sugar IP. On the inner structure and topology of clusters in two-component lipid bilayers. Comparison of monomer and dimer Ising models.
    The journal of physical chemistry. B. 2008 Sep 18;112(37):11631-42. PMID: 18729402
  • Phipps-Yonas H, Seto J, Sealfon SC, Moran TM, and Fernandez-Sesma A. Interferon-beta pretreatment of conventional and plasmacytoid human dendritic cells enhances their activation by influenza virus. PLoS pathogens. 2008 Oct;4(10):e1000193. PMID: 18974865
  • Viswanathan G, Jayaprakash C, Sealfon SC, and Hayot F. Shared kinase fluctuations between two enzymatic reactions. Physical biology. 2008 Nov 7;5(4):46002. PMID: 18997274
  • Bordería AV, Hartmann BM, Fernandez-Sesma A, Moran TM, and Sealfon SC. Antiviral-activated dendritic cells: a paracrine-induced response state. Journal of immunology. 2008 Nov 15;181(10):6872-81. PMID: 18981106
  • Berezhkovskii AM, Coppey M, and Shvartsman SY. Signaling gradients in cascades of two-state reaction-diffusion systems. Proceedings of the National Academy of Sciences of the United States of America. 2009 Jan 27;106(4):1087-92. PMID: 19147842
  • Iyer-Biswas S, Hayot F, and Jayaprakash C. Stochasticity of gene products from transcriptional pulsing. Physical review. E, Statistical, nonlinear, and soft matter physics. 2009 Mar;79(3 Pt 1):031911. PMID: 19391975

In Press

  • Ge Y, Sealfon SC, and Speed TP. Multiple testing and its
    applications to microarrays    . Statistical Methods in Medical Research. 2009 In press.
  • Sarkar A, Wist A, and Iyengar R. Signaling networks in biology.
    Wiley Encyclopedia of Chemical Biology. 2009 In press
  • Sugar IP and Sealfon SC. Model of Autocrine/Paracrine Signaling on Epithelial Layers. The journal of physical chemistry. B. 2009 Accepted pending minor revisions
  • Hu J, Biswas SI, Sealfon SC, Wetmur J, Jayaprakash C, and Hayot F. Power laws in interferon beta production in virus infected dendritic cells.
    Biophysical Journal. 2009 Accepted pending minor revisions

Submitted Manuscripts

  • Qiao L, Phipps-Yonas H, Hartmann BM, Moran TM, Sealfon SC, and Hayot F. Immune response modeling of interferon-beta pretreated influenza virus infected human dendritic cells. 2009 Submitted
  • Ge Y, Li X, and Speed TP. Control of the false discovery proportion for independently tested null hypotheses. 2009 Submitted
  • Lett GS, Haubein NC, Gupta R, Alfisi SV. Ontology Enhanced Search Engine System. Provisional patent application was filed on April 21, 2008.