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Publications

2004

Pohar, T.T., Sun, H. and Davuluri, R.V. HemoPDB: An information resource of transcriptional regulation in blood cell development. Nucleic Acids Research.  2004 32: D86-D90.

Davuluri, R.V., Grosse, I., and Zhang, M.Q.
Annotation of Promoters and First Exons in the Human Genome. Submitted

Sun, H., Palaniswamy, S.K., Pohar, T.T., and Davuluri, R.V.
MPromDb: Mammalian Promoter Database: Information Resource of Mammalian Gene Regulatory Regions. Submitted.

L.J., Raval, A., Funchain, P., Johnson, A.J., Smith, L., Bembea, M., Heerema, N.A., Rassenti, L., Liyanarachchi, S., Davuluri, R.V., Byrd, J., and Plass, C.
Widespread CpG Island Methylation and Epigenetic Transcriptional Gene Regulation in Chronic Lymphocytic Leukemia.
Submitted.

Stanchina,E.D, Querido,E., Narita, M., Davuluri, R.V., Pandolfi, P.P., Ferbeyre, G. and Lowe, S.W. PML as a direct p53 target that modulates p53 effector functions. Molecular Cell. 2004 13: 523-35.

Besco,J.A, Popesco,M.C., Davuluri, R.V., Frostholm, A.M., Rotter, A. Genomic structure and alternative splicing of murine R2B receptor protein tyrosine phosphatases(PTP kappa, mu, rho and PCp-2). BMC Genomics. Accepted.

Rush, L.J., Raval, A., Funchain, P., Johnson, A.J., Smith, L., Lucas, D., Bembea, L., Liu, T., Heerema, N.A., Rassenti, L., Liyanarachchi, S., Davuluri, R.V., Byrd, J.C., Plass, C. Epigenetic profiling in chronic lymphocytic leukemia reveals novel methylation targets. In Press. Cancer Research

Baldus, D.C., Liyanarachchi, S., Mrozek K., Auer H., Tanner S.M., Guimond, M., Ruppert, A.S., Mohamed, N., Davuluri, R.V., Caligiuri, M.A., Bloomfield, C.D. and de la Chapelle, A. Acute myeloid leukemia with complex karyotypes and abnormal chromosome 21: Amplification discloses overexpression of APP, ETS2 and ERG genes. Proc Natl Acad Sci USA. Accepted.

Sun, H., and Davuluri, R.V.  Genome data visualization tool kit (GDVTK): Java-based Application Framwork for Visualization of Gene Regulatory Region Annotations. Bioinformatics. In Press.

Pohar, T.T., Sun, H., Davuluri, R.V. HemoPDB: An information resource of transcriptional regulation in blood cell development. Nucelic Acids Research. 2004 32: D86-D90.


2003

Auer H, Liyanarachchi S, Newsom D, Klisovic MI, Marcucci U, Kornacker K.
Chipping away at the chip bias: RNA degradation in microarray analysis. Nature Genetics. 2003 Dec: 35(4):292-3.

Baldus CD, Tanner SM, Kusewitt DF, Liyanarachchi S, Choi C, Caligiuri MA, Bloomfield CD, de la Chapelle A. BAALC, a novel marker of human hematopoietic progenitor cells. Exp. Hematol. 2003 Nov;31(11):1051-6.

Lemon WJ, Liyanarachchi S, You M. A high performance test of differential gene expression for oligonucleotide arrays. Genome Biol. 2003;4(10):R67. Epub 2003 Sep 10.

Davuluri, R.V., Sun, H., Palaniswamy, S.K., Matthews, N., Molina, C., Kurtz, M., and Grotewold, E. AGRIS: Arabidopsis Gene Regulatory Information Server, an information resource of Arabidopsis cis-regulatory elements and transcription factors. BMC Bioinformatics. 2003 Jun 23;4(1):25.

Tanner SM, Aminoff M, Wright FA, Liyanarachchi S, Kuronen M, Saarinen A, Massika O, Mandel H, Broch H, de la Chapelle A. Amnionless, essential for mouse gastrulation, is mutated in recessive hereditary megaloblastic anemia. Nat Genet. 2003 Mar;33(3):426-9. Epub 2003 Feb 18.


2002

Borrego, S., Wright, F.A., Fernández, R.M., Williams, N., López-Alonso, M., Davuluri, R.V., Antiñolo, G., Eng, C. (2002).  A founding locus within the RET proto-oncogene may account for a large proportion of apparently sporadic Hirschsprung disease and a subset of sporadic medullary thyroid carcinoma cases.  Am J. Hum Genet. 72:88-100.

Nahle, Z., Polyakoff, J., Davuluri, R.V., Jacobson, M.D., McCurrach, M.E., Narita, M., Zhang, M.Q., Lazebnik, Y., Bar-Sagi, D. and Lowe, S.W. (2002). Direct coupling of the cell cycle and cell death machinery by E2F.  Nat Cell Biology. 4:859-64.

Yoon, H., Liyanarchchi, S., Wright, F.A., Davuluri, R.V., Lockman, J., de la Chapelle, A., and Pellegata, N.S. Gene expression profiling of isogenic cells with different TP53 gene dosage reveals that many genes are affected by TP53 dosage and identifies CSPG2 (Versican) as a novel direct target of p53.  Proc Natl Acade Sci USA, 99:15632-15637.

Dai, Z., Weichenhan, D., Wu, Y.Z., Hall, J.L., Rush, L.J., Smith, L.T., Raval, A., Yu, L. Kroll, D., Muehlisch, J., Frühwald, F.C., de Jong, P., Catanese, J., Davuluri, R.V., Smiraglia, J.D. and Plass, C. (2002). An AscI boundary library for the studies of genetic and epigenetic alterations in CpG islands. Genome Res. 12:1591-1598.

Gupta, V.K., Davuluri, R.V., and Parsad, R. (2002). Weighted A-optimal block designs for comparing test treatments with controls with unequal precision. J. of Statistical Planning and Inference. 106:159-175.




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