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Keck Home Page > Affymetrix GeneChip Service >Recent Publications

  • Search the Affymetrix Publication Database to find publications that use or review GeneChip® technology as well as publications relevant to specific research interests.
     

  • Publications Utilizing Services and/or Support Provided by the Keck Affymetrix Resource

  1. Teresa C. Santiago and Choukri Ben Mamoun , Genome Expression Analysis in Yeast Reveals Novel Transcriptional Regulation by Inositol and Choline and New Regulatory Functions for Opi1p, Ino2p, and Ino4p. Biol. Chem., Vol. 278, Issue 40, 38723-38730, October 3, 2003.
  2. J.L. Rinn, J.S. Rozowsky, I.J. Laurenzi, P. Petersen, K. Zon, W. Zhong, M. Gerstein, M. Snyder. (2004) The Major Molecular Differences Between Mammalian Sexes are Involved in Drug Metabolism and Renal Function. Developmental Cell 6 (6):791-800
  3. Kozal M, Chiarella J. Development of a DNA Microarray to Detect HCV and HIV Drug Resistance. XIII International HIV Drug Resistance Workshop, Tenerife Sur, Canary Islands, Spain June 8-10, 2004 Abstract # 122.
  4. Hoek, K, Rimm, DL, Williams, KR, Zhao, H, Ariyan, S, Lin, A, Kluger, HM,
    Berger, AJ, Cheng, E, E. Trombetta, S, Wu, T, Niinobe, M, Yoshikawa, K,
    Hannigan, GE, and Halaban, R: Expression profiling reveals novel
    pathways in the transformation of melanocytes to melanomas. Cancer Res,
    64: in press, 2004. 
  5. Lee, T-S., Eid, T., Mane, S., Kim, J.H., Spencer, D.D., Ottersen, O.P., and de Lanerolle, N.C. Aquaporin-4 is increased in the sclerotic hippocampus in human temporal lobe epilepsy. Acta Neuropathologica (in press) 
  6. Kidd M, Hinoue T, Eick G, Lye KD, Wei Y, Mane SM, Modlin IM. Global Gene Expression Analysis of ECL Cells in the Mastomys Gastric Mucosa Identifies Alteration in the Activator Protein-1 Pathway. Physiol Genomics 2004 Dec 15; 20(1):131-142.
  7. Eick G, Kidd M, Shapiro MD, Camp RL, Mane SM, Modlin IM. Microsatellite instability andgene mutations in TGFβRII are absent in small bowel carcinolids. Cancer (In Press).
  8. Kei-Hoi Cheung, Deyun Pan, Ranjana Srivastava,  Janet Hager,  Shrikant Mane,  Perry Miller and  Kenneth Williams. KARMA: A gene annotation database and its application to microarray platform comparison, In Press. Nucleic Acid Res.
  9. Juan Zhang, Jun Li, Haycinth Sterling, Xueyan Peng, Sheila Westman, Hanah Lamallem, Shrikant Mane and Agnes Vignery.  An analysis of gene expressed by macrophages during multinucleation. Submitted to J Biological chemistry.
  10. Lee, T., Eid, T., Mane, S., Schweitzer, J., Spencer, D. and de Lanerolle, N. Subcategories of Temporal Lobe Epilepsy are characterized by Distinct Genomic Expression Profiles. Submitted to Neuroscience, 2004.
  11. Kidd, M, Mane SM, Hinoue T, and Modlin IM. Relationship between Ki67 and P16INK4A and disease spread in gastrointestinal carcinoids. Submitted to Cancer Research.
  12. Geetha Chalasani, Qi Li, Bogumila T. Konieczny, Lonnette Smith-Diggs, Barbara Wrobel, Zhenhua Dai, David L. Perkins, Fady K. Baddoura, and Fadi G. Lakkis. The allograft defines the type of rejection (Acute versus Chronic) in the face of an established effector immune response 1. The Journal of Immunology, 2004, 172: 7813–7820
  13. Carolyn M Drazinic, Adife G Ercan-sencicek, Laura Gault, Faki Hisama, Martin Qumsiyeh, Nowak, Joseph Cubells and Matthew State. Rapid array based genomic characterization of a subtle structural abnormality: A patient with Psychosis and der(18)t (p14.1;p11.23). American Journal of Medical Genetics, 2005, 1-8.
  14. Mokoto Yono, Harris E Foster Jr, David Shin, Shrikant Mane, Robert M Weiss, Janshid Latipour. Molecular classification of doxazosin-induced alterations in the rat prostate using gene expression profiling. Life Sciences, In Press.
  15. Robert Klein, Carolyn Zeiss, Emily Chew, Jen-Yue Tsai, Richard Sackler, Haynes Chad, Alice Henning, John SanGiovanni, Shrikant mane, Susan Mayne, Michael Bracken, Frederick Ferris, Jurg Ott, Colin Barnstable, Josephine Hoh. Complement factor H polymorphism in age-related macular degeneration. Science, In press
  16. Siddharth Balachandran, Emmanuel Thomas, and Glen N. Barber. A FADD-dependent innate immune mechanism in mammalian cells. Nature,432:401-405, 2004
  17. Nahed BV, Seker A, Guclu B, Ozturk AK, Finberg K, Hawkins AA, DiLuna ML, State M, Lifton RP, Gunel M. Mapping a Mendelian form of intracranial aneurysm to 1p34.3-p36.13. Am J Hum Genet. 2005 Jan;76(1):172-9. Epub 2004 Nov 11.
  18. Kidd M, Modlin IM, Mane SM, Camp RL, Latic I, Zikusoka MN. The Utility of Molecular Genetic Signatures in the Delineation of Gastric Neoplasia. Cancer 2006 Apr 1; 106(7):1480-8.
  19. Pedra JH, Sukumaran B, Carlyon JA, Berliner N, Fikrig E. Modulation of NB4 promyelocytic leukemic cell machinery by Anaplasma phagocytophilum. Genomics. 2005 Sep;86(3):365-77
  20. Rajendra Marathe1, Zhong Guan2, Radhamani Anandalakshmi1, Hongyu Zhao2 and S. Dinesh-Kumar1 Study of Arabidopsis thaliana resistome in response to cucumber mosaic virus infection using whole genome microarray Plant Mol Biol. 2004 Jul;55(4):501-20
  21. Ueland JM, Gwira J, Liu ZX, Cantley LG. The chemokine KC regulates HGF-stimulated epithelial cell morphogenesis. Am J Physiol Renal Physiol. 2004 Mar;286(3):F581-9. Epub 2003 Nov 4.
  22. Tanabe K, Bonilla I, Winkles JA, Strittmatter SM. Fibroblast growth factor-inducible-14 is induced in axotomized neurons and promotes neurite outgrowth J Neurosci. 2003 Oct 22;23(29):9675-86.

  23. Xu Song, Ying Sun, and Alan Garen*  Roles of PSF protein and VL30 RNA in reversible gene regulation. (2005) PNAS, 102: 12189-12193.

  24. C. Wade, M.A. Umbarger, and M.A. McAlear  2006  The yeast rRNA and ribosome biosynthesis (RRB) regulon contains over 200 genes.  Yeast 23:293-306.

  25. Nakayama Y, Stabach P, Maher SE, Mahajan MC, Masiar P, Liao C, Zhang X, Ye ZJ, Tuck D, Bothwell AL, Newburger PE, Weissman SM. A limited number of genes are involved in the differentiation of germinal center B cells. J Cell Biochem. 2006 Jun 22; PMID: 16795035

  26. J. Ploski, S. Newton, R. Duman.  Electroconvulsive seizure-induced gene expression profile of the hippocampus dentate gyrus granule cell layer.  J Neurochemistry. 2006 10.1111/j.1471-4159.2006.04156.x

  27. X. Song, Y. Sun, A. Garen.  Roles of PSF protein and VL30 RNA in reversible gene regulation.  PNAS. 2005 Aug 23; vol. 102, no. 34, 12189-12193.

  28. Krikun G; Schatz F; Taylor R; Critchley HO; Rogers PA; Huang J; Lockwood CJ The immune environ Endometrial endothelial cell steroid receptor expression and steroid effects on gene expression.
    J Clin Endocrinol Metab. 2005 Mar; 90(3):1812-8.

  29. Krikun G; Mor G; Huang J; Schatz F; Lockwood CJ Metalloproteinase expression by control and telomerase immortalized human endometrial endothelial cells. Histol Histopathol 2005; 20: 719-724

  30. H Cakmak; F Schatz; SJ Huang; L Buchwalder; M Rahman; A Arici; CJ Lockwood Progestin suppresses thrombin and interleukin-1b induced interleukin-11 production in term decidual cells: Implication for preterm delivery.  J Clin Endocrinol Metab 2005; 90: 5279-5286

  31. CJ Lockwood; P Matta; G Krikun; LA Koopman; R Masch; P Toti; F Arcuri; SJ Huang; EF Funai and F Schatz Regulation of chemoattractant protein-1 expression by tumor necrosis factor alpha and interleukin-1 beta in first trimester decidual cells: implications for preeclampsia. Am J Pathol 2006; 168 (2): 445-52

  32. N Koklanaris; JC Nwachukwu; SJ Huang; S Guller; K Karpisheva; M Garabedian; M Lee First-trimester trophoblast cell model gene response to hypoxia. Am J Obstet Gynecol 2006; 194: 687-93

  33. JL Sarno; F Schatz; CJ Lockwood; SJ Huang; HS Taylor Thrombin and Interleukin-1 Beta regulates HOXA10 Expression in Human Term Decidual Cells: Implications for Preterm Labor. J Clin Endocrinol Metabol, 2006;91(6):2366-74

  34. SJ Huang; F Schatz; R Masch; M Rahman; L Buchwalder; T Niven-Fairchild; C Tang; VM Abrahams; G Krikun; CJ Lockwood Regulation of Chemokine Production in Response to Pro-inflammatory Cytokines in First Trimester Decidual Cells. J Reprod Immunol 2006 Jun 23, Epub ahead of print

  35. DB Stetson, R Medzhitov.  Recognition of cytosolic DNA activates an IRF3-dependent innate immune response.  Immunity.  2006 Jan; 24 (1); 93-103.

  36. M Kidd, IM Modlin, SM Mane, RL Camp, G Eick, I. Latich.  The role of genetic markers- MAP1L1, MAGE-D2, and MTA1- in defining small-intestinal carcinoid neoplasia.  Ann Surg Oncol. 2006 Feb;13(2):253-62.

  37.  M Kidd, IM Modlin, SM Mane, RL Camp, MD Shapiro.  Q RT-PCR detection of chromogranin A:  a new standard in the identification of neuroendocrine tumor disease.  Ann Surg. 2006 Feb;243(2):273-80.

  38. M Kidd, IM Modlin, GN Eick, MC Champaneria.  Isolation, Functional Characterization and Transcriptome of Mastomys Ileal Enterochromaffin Cells.  Am J Physiol Gastrointest Liver Physiol. 2006 Feb 2

  39. IM Modlin, M Kidd, R Pfragner, GN Eick, MC Champaneria.  The functional characterization of normal and neoplastic human enterochromaffin cells.  J Clin Enocrinol Metab. 2006 Jun;91(6):2340-8.

  40. IM Modlin, M Kidd, I Latich, MN Zikusoka, GN Eick, SM Mane, RL Camp.  Genetic differentiaion of appendiceal tumor malignancy:  a guide for the perplexed.  Ann Surg. 2006 Jul;244(1):52-60.

  41. M Kidd, IM Modlin, GN Eick, RL Camp, SM Mane.  The role of CCN2/CTGF in the proliferation of Mastomys Enterochromaffin-like cells and gastric carcinoid development.  Am J Physiol Gastrointest Liver Physiol.  2006 Aug 31.

  42. Zhang X, Rogers M, Tian H, Zhang X, Zou DJ, Liu J, Ma M, Shepherd GM, Firestein SJ (2004) High-throughput microarray detection of olfactory receptor gene expression in the mouse.  Proc Natl Acad Sci USA.  2004 Sep 28; 101(39): 14168-73.  Epub 2004 Sep 17.

  43. Tian H, Ma M. (2004) Molecular organization of the olfactory septal organ.  J Neurosci. 2004 Sep 22; 24(38): 8383-90.

  44. J Rinn, M Snyder.  Sexual dimorphism in mammalian gene expression (2005).  Trends Genet. 2005 May; 21(5):298-305.

  45. Resnick MB, Sabo E, Meitner P, Kim SS, Cho Y, Kim H, Tavares R, Moss SF.  Global analysis of the human gastric epithelial transcriptome altered by H. pylori eradication in vivo.  Gut. 2006 May 24.

  46. Arati Khanna-Gupta, Hong Sun, Theresa Zibello, Han Myung Lee, Richard Dahl, Laurence A. Boxer, Nancy Berliner.  Growth Factor Independence 1 (Gfi-1) plays a role in mediating Specific Granule Deficiency (SGD) in a patient lacking a functional abnormality in the C/EBPe gene.  Blood (in press).

  47. Weiguo Chu, Juan Zhang, Hua-Zhu Ke, Cecile Chalouni, and Agnes Vignery.  The intracellular domain of CD44 promotes the fusion of macrophages.  Blood, 796-805.  2006.

  48. CV Ramana, J Chintapalli, L Xu, C Alia, J Zhou, D Bruder, RI Enelow.  Lung Epithelial NF-kappaB and Stat1 Signaling in Response to CD8+ T Cell Antigen Recognition.  Journal of Interferon & Cytokine Research.  26:318-327 (2006).

  49. Sukumaran B, Carlyon JA, Cai JL, Berliner N, Fikrig E.  Early transcriptional response of human neutrophils to Anaplasma phagocytophilum infection.  Infect Immun. 2005 Dec; 73 (12):8089-99.  PMID:  16299303.

  50. M Yono, HE Foster Jr., D Shin, S Mane, J Latifpour.  Molecular classification of doxazosin-induced alterations in the rat prostate using gene expression profiling.  Life Sciences, vol. 77(4), 10 June 2005, 470-479.
     
 
 

 

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