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Articles in Scholarly Journals [Incomplete List]

1. The functional consequences of alternative promoter use in mammalian genomes
   Trends in Genetics, vol. 24, no. 4, pp. 167–177, 2008
2. A microRNA component of the hypoxic response
   Cell Death and Differentiation, vol. 15, no. 4, Article ID 4402310, 4 pages, 2008
3. Identification of a novel noncoding RNA gene,NAMA, that is downregulated in papillary thyroid carcinoma withBRAF mutation and associated with growth arrest
   International Journal of Cancer, vol. 121, no. 4, pp. 767–775, 2007
4. MicroRNA genes are frequently located near mouse cancer susceptibility loci
   Proceedings of the National Academy of Sciences, vol. 104, no. 19, pp. 8017–8022, 2007
5. A MicroRNA Signature of Hypoxia
   Molecular and Cellular Biology, vol. 27, no. 5, pp. 1859–1867, 2007
6. NF- B Regulation of YY1 Inhibits Skeletal Myogenesis through Transcriptional Silencing of Myofibrillar Genes
   Molecular and Cellular Biology, vol. 27, no. 12, pp. 4374–4387, 2007
7. CpG Island Methylation in a Mouse Model of Lymphoma Is Driven by the Genetic Configuration of Tumor Cells
   PLoS Genetics, vol. 3, no. 9, p. e167, 2007
8. Aberrant DNA Methylation of OLIG1, a Novel Prognostic Factor in Non-Small Cell Lung Cancer
   PLoS Medicine, vol. 4, no. 3, p. e108, 2007
9. AGRIS and AtRegNet. A Platform to Link cis-Regulatory Elements and Transcription Factors into Regulatory Networks
   PLANT PHYSIOLOGY, vol. 140, no. 3, pp. 818–829, 2006
10. BMC Bioinformatics, vol. 7, no. 1, p. 114, 2006
11. MPromDb: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-chip experimental data
    Nucleic Acids Research, vol. 34, no. 90001, pp. D98–D103, 2006
12. Prognostic DNA Methylation Biomarkers in Ovarian Cancer
    Clinical Cancer Research, vol. 12, no. 9, pp. 2788–2794, 2006
13. A mixture model-based discriminate analysis for identifying ordered transcription factor binding site pairs in gene promoters directly regulated by estrogen receptor- 
    Bioinformatics, vol. 22, no. 18, pp. 2210–2216, 2006
14. Pro- and Antiinflammatory Cytokine Signaling: Reciprocal Antagonism Regulates Interferon-gamma Production by Human Natural Killer Cells
    Immunity, vol. 24, no. 5, pp. 575–590, 2006
15. Combinatorial Analysis of Transcription Factor Partners Reveals Recruitment of c-MYC to Estrogen Receptor-a Responsive Promoters
    Molecular Cell, vol. 21, no. 3, pp. 393–404, 2006
16. Changes in gene expression associated with loss of function of the NSDHL sterol dehydrogenase in mouse embryonic fibroblasts
    The Journal of Lipid Research, vol. 46, no. 6, pp. 1150–1162, 2005
17. ERTargetDB: an integral information resource of transcription regulation of estrogen receptor target genes
    Journal of Molecular Endocrinology, vol. 35, no. 2, pp. 225–230, 2005
18. Papillary and Follicular Thyroid Carcinomas Show Distinctly Different Microarray Expression Profiles and Can Be Distinguished by a Minimum of Five Genes
    Journal of Clinical Oncology, vol. 22, no. 17, pp. 3531–3539, 2004
19. BMC Genomics, vol. 5, no. 1, p. 14, 2004
20. Epigenetic Profiling in Chronic Lymphocytic Leukemia Reveals Novel Methylation Targets
    Cancer Research, vol. 64, no. 7, pp. 2424–2433, 2004
21. Loss of Estrogen Receptor Signaling Triggers Epigenetic Silencing of Downstream Targets in Breast Cancer
    Cancer Research, vol. 64, no. 22, pp. 8184–8192, 2004
22. Role of cancer-associated stromal fibroblasts in metastatic colon cancer to the liver and their expression profiles
    Oncogene, vol. 23, no. 44, Article ID 1208013, 11 pages, 2004
23. Acute myeloid leukemia with complex karyotypes and abnormal chromosome 21: Amplification discloses overexpression of APP, ETS2, and ERG genes
    Proceedings of the National Academy of Sciences, vol. 101, no. 11, pp. 3915–3920, 2004
24. A I?RV promoter library for studies of genetic and epigenetic alterations in mouse models of human malignancies
    Genomics, vol. 84, no. 4, pp. 647–660, 2004
25. PML Is a Direct p53 Target that Modulates p53 Effector Functions
    Molecular Cell, vol. 13, no. 4, pp. 523–535, 2004
26. HemoPDB: Hematopoiesis Promoter Database, an information resource of transcriptional regulation in blood cell development
    Nucleic Acids Research, vol. 32, no. 90001, pp. 86D–90, 2004
27. Identifying estrogen receptor   target genes using integrated computational genomics and chromatin immunoprecipitation microarray
    Nucleic Acids Research, vol. 32, no. 22, pp. 6627–6635, 2004
28. Java-based application framework for visualization of gene regulatory region annotations
    Bioinformatics, vol. 20, no. 5, pp. 727–734, 2004
29. OMGProm: a database of orthologous mammalian gene promoters
    Bioinformatics, vol. 21, no. 6, pp. 835–836, 2004
30. A Founding Locus within the RET Proto-Oncogene May Account for a Large Proportion of Apparently Sporadic Hirschsprung Disease and a Subset of Cases of Sporadic Medullary Thyroid Carcinoma
    The American Journal of Human Genetics, vol. 72, no. 1, pp. 88–100, 2003
31. BMC Bioinformatics, vol. 4, no. 1, p. 25, 2003
32. An AscI Boundary Library for the Studies of Genetic and Epigenetic Alterations in CpG Islands
    Genome Research, vol. 12, no. 10, pp. 1591–1598, 2002
33. Gene expression profiling of isogenic cells with different TP53 gene dosage reveals numerous genes that are affected by TP53 dosage and identifies CSPG2 as a direct target of p53
    Proceedings of the National Academy of Sciences, vol. 99, no. 24, pp. 15632–15637, 2002
34. Direct coupling of the cell cycle and cell death machinery by E2F
    Nature Cell Biology, vol. 4, no. 11, Article ID ncb868, 5 pages, 2002
35. Corrigendum: Computational identification of promoters and first exons in the human genome
    Nature Genetics, vol. 32, no. 3, Article ID ng1102-459a, 1 pages, 2002
36. Nature Genetics, vol. 29, no. 4, pp. 412–417, 2001
37. Identifying the 3'-terminal exon in human DNA
    Bioinformatics, vol. 17, no. 7, pp. 602–607, 2001
38. CART Classification of Human 5' UTR Sequences
    Genome Research, vol. 10, no. 11, pp. 1807–1816, 2000