NFGC - Supported Publications from 2007

1. Kamath V, Hall LO, Yeatman T, Eschrich S (2007). "Multivariate Feature Selection using Random Subspace Classifiers for Gene Expression Data" in Proceedings of the 7th IEEE International Symposium on Bioinformatics and Bioengineering Vol II, Boston, MA: p.1041-1045. ISBN:1-4244-1509-8 (Biomedical Informatics Core). 
   
   
2. Kamath V, Hall LO, Goldgof D, Kasturi R, Yeatman TJ, and Eschrich S (2007). “Modeling Heterogeneous Patient Populations using Gene Expression for Colorectal Cancer Prognosis,” in Maui High Performance Computing Center Application Briefs, 13 ed., p 24-25. (Located at http://www.mhpcc.hpc.mil/research/appbriefs/2007/ ) (Biomedical Informatics Core). 
   
   
3. 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 A, Gonzales F, Bloom GL, 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, Aronow BJ. Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer. Genome Biol. 2007; 8(7):R131. PMID: 17615082 (Biomedical Informatics Core).
   
   
4. Joo, Y, Casella G, Booth J, Lee K, and Enkemann S. Normalization of Dye Bias in Microarray Data Using the Mixture of Splines Model. Stat Appl Genet Mol Biol. 2007; 6: Article 2. Epub 2007 Jan 25. PMID: 17402917 (Microarray Core).
   
   
5. Wahle JA, Paraiso KH, Kendig RD, Lawrence HR, Chen L, Wu J, Kerr WG. Inappropriate recruitment and activity by the Src homology region 2 domain-containing phosphatase 1 (SHP1) is responsible for receptor dominance in the SHIP-deficient NK cell. J Immunol. 2007 Dec 15; 179(12):8009-15. PMID: 18056340 (Drug Discovery Core).
   
   
6. Ren Y, Chen Z, Chen L, Woods NT, Reuther GW, Cheng JQ, Wang HG, Wu J. Sph2E76K Mutant Confers Cytokine-independent Survival of TF-1 Myeloid Cells by Up-regulating Bcl-XL. J Biol Chem, 2007 Dec 14; 282(50):36463-73. Epub 2007 Oct 17. PMID:  17942397 (Analytic Microscopy Core).
   
   
7. Villagra A, Ulloa N, Zhang X, Yuan Z, Sotomayor E, Seto E. Histone deacetylase 3 down-regulates cholesterol synthesis through repression of lanosterol synthase gene expression. J Biol Chem. 2007 Dec 7; 282(49):35457-70. Epub 2007 Oct 9. PMID:  17925399 (Microarray Core).
   
   
8. Yang Y, Fu W,Chen J, Olashaw N, Zhang X, Nicosia SV, Bhalla K, Bai W. SIRT1 sumoylation regulates its deacetylase activity and cellular response to genotoxic stress. Nat Cell Biol. 2007 Nov; 9(11):1253-62. Epub 2007 Oct 14. PMID: 17934453 
   
   
9. Eschrich S, Zhang H, Zhao H, Lee J, Bloom G, Boulware D, Rocha-Lima C, Calvin DP, Yeatman TJ, Torres-Roca JF. Towards Personalized Radiation Therapy: Translation of a Mathematical Model of the Radiosensitivity Network to the Prediction of Clinical Radiation Response. International Journal of Radiation Oncology *Biology* Physics 1; November 2007 (Vol. 69, Issue 3, Page S595) (Biomedical Informatics Core).
   
   
10. Woods NT, Yamaguchi H, Lee FY, Bhalla KN, Wang HG. Anoikis, initiated by Mcl-1 degradation and Bim induction, is deregulated during oncogenesis. Cancer Res. 2007 Nov 15; 67(22):10744-52. PMID: 18006817 (Mouse Models Core).
    
    
11. Scuto A, Zhang H, Zhao H, Rivera M, Yeatman TJ, Jove R, Torres-Roca JF. RbAp48 regulates cytoskeletal organization and morphology by increasing K-Ras activity and signaling through mitogen-activated protein kinase. Cancer Res. 2007 Nov 1; 67(21):10317-24. PMID: 17974974 (Analytic Microscopy Core).
    
    
12. Takahashi Y, Coppola D, Matsushita N, Cualing HD, Sun M, Sato Y, Liang C, Jung JU, Cheng JQ, Mulé JJ, Pledger WJ, Wang HG. Bif-1 interacts with Beclin 1 through UVRAG and regulates autophagy and tumorigenesis. Nat Cell Biol. 2007 Oct; 9(10):1142-51. Epub 2007 Sep 23. PMID: 17891140 (Analytic Microscopy Core).
    
    
13. Sagatys E, Garrett CR, Boulware D, Kelley S, Malafa M, Cheng JQ, Sebti S, Coppola D. Activation of the serine/threonine protein kinase Akt during the progression of Barrett neoplasia. Hum Pathol. 2007 Oct; 38(10):1526-31. Epub 2007 Jul 19. PMID:  17640711 (Biostatistics Core, Drug Discovery Core and Tissue Procurement Core).
    
    
14. Lee JH, Eschrich S, Beam C. An Exact Test for Detecting Inconsistency in Readers Interpretation Over Time in Screening Mammograms. Biom J. 2007 Oct; 49(5):672-81. PMID: 17638286 (Biomedical Informatics Core).
    
    
15. Wang C, Rauscher FJ III, Cress WD, Chen J. Regulation of E2F1 function by the nuclear corepressor KAP1. J Biol Chem. 2007 Oct 12; 282(41):29902-9. Epub 2007 Aug 17. PMID: 17704056 (Chen Programmatic Research Grant and Molecular Biology Core).
    
    
16. Saglam O, Garrett CR, Boulware D, Sayegh Z, Shibata D, Malafa M, Yeatman T, Cheng JQ, Sebti S, Coppola D. Activation of the serine/threonine protein kinase AKT during the progression of colorectal neoplasia. Clin Colorectal Cancer. 2007 Sep; 6(9):652-6. PMID: 17945038 (Biostatistics Core, Drug Discovery Core and Tissue Procurement Core).
    
    
17. McCarthy S, Caporali A, Enkemann S, Scaltriti M, Eschrich S, Davalli P, Corti A, Lee A, Sung J, Yeatman TJ, Bettuzzi S. Green tea catechins suppress the DNA synthesis marker MCM7 in the TRAMP model of prostate cancer. Mol Oncol. 2007 Sep; 1(2): 196-204. PMID: 18521193 (Microarray Core and Biomedical Informatics Core).
    
    
18. Edwards A, Li J, Atadja P, Bhalla K, Haura EB. Effect of the histone deacetylase inhibitor LBH589 against epidermal growth factor receptor dependent human lung cancer cells. Mol Cancer Ther. 2007 Sep; 6(9):2515-24. PMID: 17876048 (Biomedical Informatics Core and Molecular Biology Core).
    
    
19. Bui MM, Bagui TK, Boulware DC, Letson DG, Nasir A, Kaiser HE, Pledger WJ, Coppola D. Altered expression of cell cycle regulatory proteins in benign and malignant bone and soft tissue neoplasms. In Vivo. 2007 Sep-Oct; 21(5):729-37. PMID:  18019405 (Tissue Procurement Core).
    
    
20. Brooks WH, McCloskey DE, Daniel KG, Ealick SE, Secrist JA the 3rd, Waud WR, Pegg AE, Guida WC. In Silico Chemical Library Screening and Experimental Validation of a Novel 9-Aminoacridine Based Lead-Inhibitor of Human S-Adenosylmethionine Decarboxylase. J Chem Inf Model. 2007 Sep 24; 47(5):1897-1905. Epub 2007 Aug 4. PMID: 17676832 (Drug Discovery Core and High Throughput Screening Core).
    
    
21. Buettner R, Huang M, Gritsko T, Karras J, Enkemann S, Mesa T, Nam S, Yu H, Jove R. Activated signal transducers and activators of transcription 3 signaling induces CD46 expression and protects human cancer cells from complement-dependent cytotoxicity. Mol Cancer Res. 2007 Aug; 5(8):823-32. PMID: 17699108 (Microarray Core).
    
    
22. Nagaraj S, Gupta K, Pisarev V, Kinarsky L, Sherman S, Kang L, Herber DL, Schneck J, Gabrilovich DI. Altered recognition of antigen is a mechanism of CD8+ T cell tolerance in cancer. Nat Med. 2007 Jul; 13(7):828-35. PMID: 17603493 (Analytic Microscopy Core).
    
    
23. Zhang X, Yuan Z, Zhang Y, Yong S, Salas-Burgos A, Koomen J, Olashaw N, Parsons JT, Yang XJ, Dent SR, Yao TP, Lane WS, Seto E. HDAC6 modulates cell motility by altering the acetylation level of cortactin. Mol Cell. 2007 Jul 20; 27(2):197-213. PMID: 17643370 (Proteomics Core).
    
    
24. Engelman RW, Jackson RJ, Coppola D, Wharton W, Cantor AB, Pledger WJ. Loss of nuclear p.21 (Cip1/WAF1) during neoplastic progression to metastasis in gamma-irradiated p21 hemizygous mice. Exp Mol Pathol. 2007 Jun; 82(3):234-44. Epub 2007 Jan 4. PMID: 17207793 (Biostatistics Core).
    
    
25. Eschrich SA and Hoerter AM. Libaffy: Software for Processing Affymetrix GeneChip Data. Bioinformatics. 2007 Jun 15; 23(12):1562-4. Epub 2007 Apr 26. PMID: 17463032 (Biomedical Informatics Core).
    
    
26. Epling-Burnette PK, Bai F, Painter JS, Rollison DE, Salih HR, Krusch M, Zou J, Ku E, Zhong B, Boulware D, Moscinski L, Wei S, Djeu JY, List AF. Reduced natural killer (NK) function associated with high-risk myelodysplastic syndrome (MDS) and reduced expression of activating NK receptors. Blood. 2007 Jun 1; 109(11):4816-24. Epub 2007 Mar 6. PMID: 17341666 (Biostatistics Core).
    
    
27. Carie AE, Sebti SM. A chemical biology approach identifies a beta-2 adrenergic receptor agonist that causes human tumor regression by blocking the Raf-1/Mek-1/Erk1/2 pathway. Oncogene. 2007 May 31; 26(26):3777-88. Epub 2007 Jan. PMID:  17260025 (Analytic Microscopy Core).
    
    
28. Ma Y, Cress WD. Transcriptional upregulation of p57 (Kip2) by the cyclin-dependent kinase inhibitor BMS-387032 is E2F dependent and serves as a negative feedback loop limiting cytotoxicity. Oncogene. 2007 May 24; 26(24):3532-40. Epub 2006 Dec 18. PMID: 17173074 (Analytic Microscopy Core and Molecular Biology Core).
    
    
29. Munster P, Marchion D, Bicaku E, Schmitt M, Lee JH, DeConti R, Simon G, Fishman M, Minton S, Garrett C, Chiappori A, Lush R, Sullivan D, Daud A. Phase I trial of histone deacetylase inhibition by valproic acid followed by the topoisomerase II inhibitor epirubicin in advanced solid tumors: a clinical and translational study. J Clin Oncol. 2007 May 20; 25(15):1979-85. PMID: 17513804 (Analytic Microscopy Core).
    
    
30. Jensen EH, Lewis JM, McLoughlin JM, Alvarado MD, Daud A, Messina J, Enkemann S, Yeatman TJ, Sondak VK, Riker AI. Down-Regulation of Pro-Apoptotic Genes is an Early Event in the Progression of Malignant Melanoma. Ann Surg Oncol. 2007 Apr; 14(4):1416-23. Epub 2006 Dec 30. PMID: 17195911 (Microarray Core).
    
    
31. Epling-Burnette PK, Painter JS, Rollison DE, Ku E, Vendron D, Widen R, Boulware D, Zou JX, Bai F, List AF. Prevalence and clinical association of clonal T-cell expansions in Myelodysplastic Syndrome. Leukemia. 2007 Apr; 21(4):659-67. Epub 2007 Feb 15. PMID: 17301813 (Biostatistics Core).
    
    
32. Siddiquee K, Zhang S, Guida WC, Blaskovich MA, Greedy B, Lawrence HR, Yip ML, Jove R, McLaughlin MM, Lawrence NJ, Sebti SM, Turkson J. Selective chemical probe inhibitor of Stat3, identified through structure-based virtual screening, induces antitumor activity. Proc Natl Acad Sci USA. 2007 Apr 26; PMID: 17463090 (High Throughput Screening Core).
    
    
33. Vitale L, Frabetti F, Huntsman SA, Canaider S, Casadei R, Lenzi L, Facchin F, Carinci P, Zannotti M, Coppola D, Strippoli P. Sequence, subtle alternative splicing and expression of the CYYR1 (cysteine/tyrosine-rich 1) mRNA in human neuroendocrine tumors. BMC Cancer. 2007 Apr 18; 7(1):66. PMID: 17442112 (Tissue Procurement Core).
    
    
34. Yang L, Sun M, Sun XM, Cheng GZ, Nicosia SV, Cheng JQ. Akt Attenuation of the Serine Protease Activity of HtrA2/Omi through Phosphorylation of Serine 212.J Biol Chem. 2007 Apr 13; 282(15):10981-7. Epub 2007 Feb 20. PMID: 17311912 (Molecular Biology Core).
    
    
35. Ohshiro K, Rosenthal DI, Koomen JM, Streckfus CF, Chambers M, Kobayashi R, El-Naggar AK. Pre-analytic saliva processing affect proteomic results and biomarker screening of head and neck squamous carcinoma. Int J Oncol. 2007 Mar; 30(3):743-9.  PMID: 17273777 (Proteomics Core).
        
36. Li J, Yu B, Song L, Eschrich S, Haura EB. Effects of IFN-gamma and Stat1 on gene expression, growth, and survival in non-small cell lung cancer cells. J Interferon Cytokine Res. 2007 Mar; 27(3):209-20. PMID: 17348819 (Biomedical Informatics Core).
    
    
37. Lee H, Kim D, Dan HC, Wu EL, Gritsko TM, Cao C, Nicosia SV, Golemis EA, Liu W, Coppola D, Brem SS, Testa JR, Cheng JQ. Identification and characterization of putative tumor suppressor NGB, a GTP-binding protein that interacts with the neurofibromatosis 2 protein. Mol Cell Biol. 2007 Mar; 27(6):2103-19. Epub 2007 Jan 8. PMID: 17210637 (Tissue Procurement Core).
    
    
38. Shor AC, Keschman EA, Lee FY, Muro-Cacho C, Letson GD, Trent JC, Pledger WJ, Jove R. Dasatinib inhibits migration and invasion in diverse human sarcoma cell lines and induces apoptosis in bone sarcoma cells dependent on SRC kinase for survival. Cancer Res. 2007 Mar 15; 67(6):2800-8. PMID: 17363602
    
    
39. Rollison DE, Sexton WJ, Rodriguez AR, Kang LC, Daniel R, Shah KV. Lack of BK virus DNA sequences in most transitional-cell carcinomas of the bladder. Int J Cancer. 2007 Mar 15; 120(6):1248-51. PMID: 17192899 (Tissue Procurement Core).
    
    
40. Mohapatra S, Coppola D, Riker Al, Pledger WJ. Roscovitine inhibits differentiation and invasion in a three-dimensional skin reconstruction model of metastatic melanoma. Mol Cancer Res. 2007 Feb; 5(2) 145-51. PMID: 17314272 (Analytic Microscopy Core and Tissue Procurement Core).
    
    
41. Niu G, Carter WB. Human epidermal growth factor receptor 2 regulates angiopoietin-2 expression in breast cancer via AKT and mitogen-activated protein kinase pathways. Cancer Res. 2007 Feb 15; 67(4):1487-93. PMID: 17308086 (Molecular Biology Core).
    
    
42. Coussot G, Hawke DH, Mularz A, Koomen JM, Kobayashi R. A method for the isolation of blocked N-terminal peptides. Anal Biochem. 2007 Feb 15; 361(2):302-4. Epub 2006 Dec 4. PMID: 17188638 (Proteomics Core).
    
    
43. Carvalho MA, Marsillac SM, Karchin R, Manoukian S, Grist S, Swaby RF, Urmenyi TP, Rondinelli E, Silva R, Gayol L, Baumbach L, Sutphen R, Pickard-Brzosowicz JL, Nathanson KL, Sali A, Goldgar D, Couch FJ, Radice P, Monteiro AN. Determination of cancer risk associated with germ line BRCA1 missense variants by functional analysis. Cancer Res. 2007 Feb 15; 67(4):1494-501. PMID: 17308087 (Molecular Biology Core).
    
    
44. Bloom GC, Eschrich S, Zhou JX, Coppola D, Yeatman TJ. Elucidation of a protein signature discriminating six common types of adeadenocarcinoma. Int J Cancer. 2007 Feb 15; 120(4):769-75. PMID:  17131332 (Biomedical Informatics Core, Tissue Procurement Core and Yeatman Colon Cancer Project).
    
    
45. Dressman HK, Berchuck A, Chan G, Zhai J, Bild A, Sayer R, Cragun J, Clarke J, Whitaker RS, Li L, Gray J, Marks J, Ginsburg GS, Potti A, West M, Nevins JR, Lancaster JM. An integrated genomic-based approach to individualized treatment of patients with advanced-stage ovarian cancer. J Clin Oncol. 2007 Feb 10; 25(5):517-25. PMID: 17290060 (Lancaster Pilot Project).
    
    
46. Rezania D, Ouban A, Marcet J, Kelley S, Coppola D. CMV colitis mimicking recurrent inflammatory bowel disease: report of three cases. Am Surg. 2007 Jan; 73(1):58-61. PMID: 17249458 (Tissue Procurement Core).
    
    
47. Nasir A, Boulware D, Kaiser HE, Lancaster JM, Coppola D, Smith PV, Hakam A, Siegel SE, Bodey B. Cyclooxygenase-2 (COX-2) expression in human endometrial carcinoma and precursor lesions and its possible use in cancer chemoprevention and therapy. In Vivo. 2007 Jan-Feb; 21(1):35-43. PMID: 17354612 (Biostatistics Core and Tissue Procurement Core).
    
    
48. Hazlehurst LA, Argilagos RF, Dalton WS. Beta1 integrin mediated adhesion increases Bim protein degradation and contributes to drug resistance in leukaemia cells. Br J Haematol. 2007 Jan; 136(2):269-75. PMID: 17233818 (Analytic Microscopy Core, Molecular Biology Core, Microarray Core and Biostatistics Core).
    
    
49. Kumar N, Shibata D, Helm J, Coppola D, Malafa M. Green tea polyphenols in the prevention of colon cancer. Front Biosci. 2007 Jan 1; 12:2309-15. PMID: 17127241 (Tissue Procurement Core).
    
    
    Page Edited 9/16/09