Research Topics
| Yingdong ZhaoSummaryAffiliation: National Institutes of Health Country: USA Publications
| Collaborators
|
Detail Information
Publications
Gene expression deconvolution in clinical samplesYingdong Zhao
Biometric Research Branch, Division of Cancer Treatment and Diagnosis, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, USA
Genome Med 2:93. 2010..Consequently, the deconvolution approach can be useful in the analysis of mixtures of cell populations in clinical samples...
Molecular differentiation of high- and moderate-grade human prostate cancer by cDNA microarray analysisCarolyn J M Best
Pathogenetics Unit, Laboratory of Pathology and Urologic Oncology Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, USA
Diagn Mol Pathol 12:63-70. 2003..We suggest that these data provide insight into the molecular nature of clinically aggressive prostate cancer...
Conservation of genetic alterations in recurrent melanoma supports the melanoma stem cell hypothesisMarianna Sabatino
Infectious Disease and Immunogenetics Section, Department of Transfusion Medicine, Warren G Magnuson Clinical Center, Biometrics Research Branch, National Cancer Institute, NIH, Bethesda, Maryland 20892 1184, USA
Cancer Res 68:122-31. 2008..Our study provides important insights about the dynamics of cancer progression and supports the development of targeted anticancer therapies aimed against stable genetic factors that are maintained throughout the end stage of disease...- Analysis of gene expression data using BRB-ArrayToolsRichard Simon
Biometric Research Branch, National Cancer Institute, Bethesda, MD 20892 7434, USA
Cancer Inform 3:11-7. 2007.... - "Sequencing-grade" screening for BRCA1 variants by oligo-arraysAlessandro Monaco
Department of Transfusion Medicine, Clinical Center, National Institutes of Health, Bethesda, MD, USA
J Transl Med 6:64. 2008..This system is particularly useful for the screening of long genomic regions with relatively infrequent but clinically relevant variants, while drastically cutting time and costs in comparison to high-throughput sequencing... - MicroRNA expression differentiates histology and predicts survival of lung cancerMaria Teresa Landi
Genetic Epidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, Department of Health and Human Services, Bethesda, Maryland 20892 7236, USA
Clin Cancer Res 16:430-41. 2010..The molecular drivers that determine histology in lung cancer are largely unknown. We investigated whether microRNA (miR) expression profiles can differentiate histologic subtypes and predict survival for non-small cell lung cancer... - How large a training set is needed to develop a classifier for microarray data?Kevin K Dobbin
Biometric Research Branch, Division of Cancer Treatment and Diagnosis, National Cancer Institute, NIH, Rockville, Maryland 20852, USA
Clin Cancer Res 14:108-14. 2008..The question of how many samples are needed in the training set to produce a good classifier from high-dimensional microarray data is challenging... - Strengths and limitations of laboratory procedures for microRNA detectionJill Koshiol
Infections and Immunepidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, 6120 Executive Boulevard, Room 7070, Rockville, MD 20852 7248, USA
Cancer Epidemiol Biomarkers Prev 19:907-11. 2010..MicroRNAs (miR) are endogenous, noncoding RNAs involved in many cellular processes and have been associated with the development and progression of cancer. There are many different ways to evaluate miRs... - Sequential gene profiling of basal cell carcinomas treated with imiquimod in a placebo-controlled study defines the requirements for tissue rejectionMonica C Panelli
Immunogenetics Section, Department of Transfusion Medicine, Clinical Center National Institutes of Health, Bethesda, MD 20892, USA
Genome Biol 8:R8. 2007..We hypothesized that the characterization of the early transcriptional events induced by imiquimod may provide insights about immunological events preceding acute tissue and/or tumor rejection... - Development and validation of predictive indices for a continuous outcome using gene expression profilesYingdong Zhao
Biometric Research Branch, Division of Cancer Treatment and Diagnosis, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, USA Email
Cancer Inform 9:105-14. 2010..We have developed a plug-in for BRB-ArrayTools that implements the LAR and the LASSO algorithms with complete cross-validation... - Evaluation of normalization methods for two-channel microRNA microarraysYingdong Zhao
Division of Cancer Treatment and Diagnosis, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, USA
J Transl Med 8:69. 2010..Findings from previous studies have sometimes been inconclusive or contradictory. Further studies to determine optimal normalization methods for miR microarrays are needed... - An adaptive method for cDNA microarray normalizationYingdong Zhao
Biometric Research Branch, National Cancer Institute, National Institutes of Health, Rockville, Maryland, USA
BMC Bioinformatics 6:28. 2005..These assumptions can be inappropriate for custom arrays or arrays in which the reference RNA is very different from the experimental samples... - Selection and validation of endogenous reference genes using a high throughput approachPing Jin
Immunogenetics Section, Department of Transfusion Medicine, Clinical Center, NIH Bethesda, MD 20892, USA
BMC Genomics 5:55. 2004..Whether this assumption is correct it is, however, still matter of debate. In this study, we searched for stably expressed genes in 384 cDNA array hybridization experiments encompassing different tissues and cell lines... - A comparison of phase II study strategiesSally Hunsberger
Biometric Research Branch, Division of Cancer Treatment and Diagnosis, National Cancer Institute, Bethesda, Maryland 20892, USA
Clin Cancer Res 15:5950-5. 2009..In this article, we compare different phase II study strategies to determine the most efficient drug development path in terms of number of patients and length of time to conclusion of drug efficacy on overall survival... - Prospective molecular profiling of melanoma metastases suggests classifiers of immune responsivenessEna Wang
Immunogenetics Section, Department of Transfusion Medicine, Clinical Center, NIH, Bethesda, Maryland 20892, USA
Cancer Res 62:3581-6. 2002..001). Analysis of their annotations denoted that approximately half of them were related to T-cell regulation, suggesting that immune responsiveness might be predetermined by a tumor microenvironment conducive to immune recognition... - Common cancer biomarkersChristopher F Basil
Department of Transfusion Medicine, Warren G. Magnuson Clinical Center, National Cancer Institute, NIH, Bethesda, Maryland 20892-1184, USA
Cancer Res 66:2953-61. 2006.... - Gene Set Expression Comparison kit for BRB-ArrayToolsXiaojiang Xu
Biometric Research Branch, National Cancer Institute, 9000 Rockville Pike, Bethesda, MD 20892 7434, USA
Bioinformatics 24:137-9. 2008..AVAILABILITY: Gene Set Expression Comparison kit is freely available as a module of BRB-ArrayTools for non-commercial users. BRB-ArrayTools is available at http://linus.nci.nih.gov/BRB-ArrayTools.html... - Combining positional scanning peptide libraries, HLA-DR transfectants and bioinformatics to dissect the epitope spectrum of HLA class II cross-restricted CD4+ T cell clonesMireia Sospedra
Cellular Immunology Section, Neuroimmunology Branch, NINDS, National Institutes of Health, Bethesda, Maryland 20892, USA
J Immunol Methods 353:93-101. 2010..In contrast, the use of B cell lines expressing single HLA class II molecules as APCs instead of autologous peripheral blood mononuclear cells markedly improves the capacity to identify target peptides for this type of T cells... - Recognition of conserved amino acid motifs of common viruses and its role in autoimmunityMireia Sospedra
Cellular Immunology Section, Neuroimmunology Branch, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, Maryland, USA
PLoS Pathog 1:e41. 2005..Our data suggest that repeated infections with common pathogenic and even nonpathogenic viruses could expand T cells specific for conserved protein domains that are able to cross-react with tissue-derived and ubiquitous autoantigens... - Artificial intelligence methods for predicting T-cell epitopesYingdong Zhao
National Cancer Institute, National Institutes of Health, Rockville, MD, USA
Methods Mol Biol 409:217-25. 2007..For predicting T-cell epitopes for an MHC class II-restricted TCC, we built a shift model that integrated MHC-binding data and data from T-cell proliferation assay against a combinatorial library of peptide mixtures...