Journal Article |
| Chen H-I H, Hsu F-H, Jiang Y, Meltzer PS, Chuang EY, Chen Y. A Probe-Density Based Analysis Method for Array CGH data: Simulation, Normalization and Centralization Bioinformatics 2008 Aug;24:1749-1756.
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| Camps J, Grade M, Nguyen QT, Hormann P, Becker S, Hummon AB, Rodriguez V, Chandrasekharappa S, Chen Y, Difilippantonio MJ, Becker H, Chadimi BM, Ried T. Chromosomal breakpoints in primary colon cancer cluster at sites of structural variants in the genome Cancer Research 2008 Mar;68(5):1284-1295.
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| Huang S, Chen Y, Podsypanina K, Li Y. Comparison of expression profiles of metastatic versus primary mammary tumors in MMTV-Wnt-1 and MMTV-Neu transgenic mice Neoplasia 2008 Feb;10(2):118-124.
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| Amundson SA, Do KT, Vinikoor LC, Lee RA, Koch-Paiz CA, Ahn R, Reimers M, Chen Y, Scudiero DA, Weinstein JN, Trent JM, Bittner ML, Meltzer PS, Forance AJ Jr. Integrating global gene expression and radiation survival parameters across the 60 cell lines of the National Cancer Institute Anticancer Drug Screen Cancer Research 2008 Jan;68(2):415-424.
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| Ji Y, Prasad NB, Novotny EA, Elkahloun A, Chen Y, Agarwal SK, Marx SJ, Collins FS, Chandrasekharappa SC. Mouse Embryo Fibroblasts Lacking The Tumor Suppressor Menin Show Altered Expression Of Extracellular Matrix Protein Genes Molecular Cancer Research 2007 Oct;5(10):1041-1051.
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| Rodriguez V, Chen Y, Elkahloun A, Dutra A, Pak E, Chandrasekharappa S. Chromosome 8 BAC Array Comparative Genomic Hybridization and Expression Analysis Identify Amplification and Overexpression of a Novel Gene TRMT12 in Breast Cancer Genes, Chromosomes and Cancers 2007 Jul;46(7):694-707.
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| Jia HL, Ye QH, Qin LX, Budhu A, Forgues M, Chen Y, Liu YK, Sun HC, Wang L, Lu HZ, Shen F, Tang ZY, Wang XW. Gene expression profiling reveals potential biomarkers of human hepatocellular carcinoma Clinical Cancer Research 2007 Feb;13(4):1133-1139.
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| Hansen A, Chen Y, Inman JM, Phan QN, Qi ZQ, Xiang CC, Palkovits M, Cherman N, Kutnetsov SA, Robey PG, Mezey E, Brownstein MJ. Comparison of expression profiles of metastatic versus primary mammary tumors in MMTV-Wnt-1 and MMTV-Neu transgenic mice Neoplasia 2007 Jan;4(1):35-37.
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| Huang S, Podsypania K, Chen Y, Cai W, Tsimelzon A, Hilsenbeck S, Li Y. Wnt-1 is dominant over neu in specifying mammary tumor expression profiles Technol Cancer Res Treat 2006 Dec;5(6):565-571.
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| Dunn TA, Chen S, Faith DA, Hicks JL, Platz EA, Chen Y, Ewing CM, Sauvageot J, Isaacs WB, DeMarzo AM, Luo J. A Novel Role of Myosin VI in Human Prostate Cancer Am. J. Pathol 2006 Nov;169(5):1843-1854.
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| Budhu A, Forgues M, Ye Q-H, Jia H-L, He P, Zanetti KA, Kammula US, Chen Y, Qin L-X, Tang Z-Y, Wang XW. Prediction of venous metastases, recurrence and prognosis in hepatocellular carcinoma based on a unique immune response signature of the liver microenvironment Cancer Cell 2006 Aug;12(3):169-179.
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| Flores I, Rivera E, Mousses S, Chen Y, Rozenblum E. Identification of Molecular Markers for Endometriosis in Blood Lymphocytes using DNA Microarrays Fertility and Sterility 2006 Jun;85(6):1676-1683.
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| Hua J, Balagurunathan Y, Chen Y, Lowey J, Bittner M, Xiong Z, Suh E, Dougherty ER. Normalization Benefits Microarray-Based Classification EURASIP Journal on Bioinformatics and Systems Biology 2006 May;2006.
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| Hansson SR, Chen Y, Brodszki J, Chen M, Hernandez-Andrade E, Inman JM, Kozhich OA, Larsson I, Marsal K, Medstrand P, Xiang CC, Brownstein MJ. Gene expression profiling of human placentas from preeclamptic and normotensive pregnancies Molecular Human Reproduction 2006 Mar;12(3):169-179.
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| Crawford GE, Holt IE, Whittle J, Webb BD, Tai D, Davis S, Margulies EH, Chen Y, Bernat JA, Ginsburg S, Zhou D, Luo S, Vasicek TJ, Daly MJ, Wolfsberg TG, Collins FS. Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS) Genome Res 2006 Jan;16(1):123-131.
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| Baird S, David S, Antonescu CR, Harper UL, Walker RL, Chen Y, Glatfelter AA, Duray PH, Meltzer PS. Gene expression profiling of human sarcomas: insights into sarcoma biology Cancer Research 2005 Oct;65(10):9226-9235.
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| Dougherty ER, Hus J, Xiong Z, Chen Y. Optimal Robust Classifiers Pattern Recognition 2005 Oct;38(10):1520-1532.
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| Huang S, Li Y, Chen Y, Podsypania K, Chamorro M, Olshen AB, Desai AB, Tann AN, Petersen D, Green JE, Varmus HE. Change in Gene Expression During the Development of Mammary Tumors in MMTV-Wnt-1 Transgenic Mice Genome Biology 2005 Jan;6(10).
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| Petrovics G, Liu A, Shaheduzzaman S, Furasato B, Sun C, Chen Y, Nau M, Ravindranath L, Chen Y, Dobi A, Srikantan V, Sesterhenn IA, McLeod DG, Vahey M, Moul JW, Srivastava S. Frequent overexpression of ETS-related gene-1 (ERG1) in prostate cancer Transcriptome Oncogene 2005 Jan;:1-6.
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| Attoor S, Dougherty ER, Chen Y, Bittner ML, Trent JM. Which is Better for cDNA-Microarray-Based Classification: Ratios or Direct Intensities Bioinformatics 2004 Nov;20(16):2513-2520.
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| Huusko P, Ponciano-Jackson D, Azorsa D, Weaver D, Kiefer J, Tuzmen S, Robbins C, Moses T, Wolf M, Allinen M, Chen Y, Elkahloun A, Basik M, Bova GS, Bubendorf L, Schleutker J, Ozcelik H, Trent J, Elowe S, Pawson T, Carpten J, Kallioniemi OP, Mousses S. NMD microarray analysis implicates mutations of the EphB2 gene in human prostate cancer Nature Genetics 2004 Aug;36(9):979-983.
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| Balagurunathan Y, Wang N, Dougherty ER, Nguyen DV, Chen Y, Bittner ML, Trent JM, Carroll RJ. Noise Factor Analysis for cDNA Microarrays Biomedical Optics 2004 Jul;9(4):663-845.
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| Susvovich TJ, Paulose-Murphy M, Harlow JD, Chen Y, Thomas SY, Mellott TJ, Walker BD, Scadden DT, Zeichner S, Brander C. Defective Immune Function of Primary Effusion Lymphoma Cells is Associated with Distinct KSHV Gene Expression Profiles Leukemia & Lymphoma 2004 Jun;45(6):1223-1238.
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| Wolf M, Mousses S, Hautaniemi S, Karhu S, Huusko P, Allinen M, Elkahloun A, Monni O, Chen Y, Kallioniemi A, Kallioniemi OP. High-resolution analysis of gene copy number alterations in human prostate cancer using CGH on cDNA microarrays: impact of copy number on gene expression 2004 May;6(3):240-247.
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| Weeraratna AT, Becker D, Carr KM, Duray PH, Rosenblatt KP, Yang S, Chen Y, Bittner M, Strausberg RL, Riggins GJ, Wagner U, Kallioniemi OP, Trent JM, Morin PJ, Meltzer PS. Generation and analysis of melanoma SAGE libraries: SAGE advice on the melanoma transcriptome Oncogene 2004 Mar;23(12):2264-2274.
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| Kim JW, Ye Q, Forgues M, Chen Y, Budhu A, Sime J, Hofseth L, Kaul R, Wang XW. Cancer-associated molecular signature in the tissue samples of patients with cirrhosis Hepatology 2004 Feb;39(2):518-527.
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| Xiongwu W, Chen Y, Brooks NR, Su YA. The Local Maximum Clustering Methods and Its Application in Microarray Gene Expression Analysis EURASIP Applied Signal Analysis 2004 Jan;:53-63.
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Abstract |
| Chang, Mimi L., Sanchez-Diaz, Patricia C., Romeo, Anne, Chen Y, Tomlinson GE, Hung JY. Translational genomics studies of dysregulated MicroRNAs in stem-like populations from embryonal tumor cell lines. (POSTER) San Antonio, TX: Department of Pediatrics; 2009 May. (Pediatrics Research Day).
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Editorial |
| Chen Y. 1.Associate Editor EURASIP Journal on Bioinformatics and Systems Biology 2005 Jan;.
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| Wang X, Dougherty E, Chen Y, Peterson CP. Special Issue on Genomic Signal Processing EURASIP Journal on Applied Signal Processing 2004 Jan;2004(1).
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