Research Topics
| Yu ZhangSummaryAffiliation: National Institutes of Health Country: USA Publications
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Detail Information
Publications
Constraint and turnover in sex-biased gene expression in the genus DrosophilaYu Zhang
Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland 20892, USA
Nature 450:233-7. 2007..This higher divergence and turnover of genes with male-biased expression may be due to high transcription rates in the male germline, greater functional pleiotropy of genes expressed in females, and/or sexual competition...- Demasculinization of X chromosomes in the Drosophila genusDavid Sturgill
Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Department of Health and Human Services, Bethesda Maryland 20892, USA
Nature 450:238-41. 2007.... - An evolutionary consequence of dosage compensation on Drosophila melanogaster female X-chromatin structure?Yu Zhang
Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 8028, USA
BMC Genomics 11:6. 2010..The evolution of this system could result in neutral X chromatin changes that will be apparent in females... - Expression in aneuploid Drosophila S2 cellsYu Zhang
Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, United States of America
PLoS Biol 8:e1000320. 2010..Our data indicate that expression dosage compensation dampens the effect of altered DNA copy number genome-wide. For the X chromosome, compensation includes fixed and dose-dependent components... - The gastric cardia is not a target for human papillomavirus-induced carcinogenesisJill Koshiol
Infections and Immunoepidemiology Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, 6120 Executive Boulevard, Room 7070, Rockville, MD 20852 7248, USA
Cancer Epidemiol Biomarkers Prev 19:1137-9. 2010..Given the availability of an effective HPV vaccine and its potential to prevent HPV-associated cancer, we decided to evaluate the prevalence of HPV DNA in GCA... - No role for human papillomavirus in esophageal squamous cell carcinoma in ChinaJill Koshiol
Division of Cancer Epidemiology and Genetics, Department of Health and Human Services, National Cancer Institute, National Institutes of Health, Bethesda, MD 20852 7248, USA
Int J Cancer 127:93-100. 2010..HPV DNA contamination cannot be ruled out as an explanation for high HPV prevalence in ESCC tissue studies with less stringent tissue procurement and processing protocols... - A 220-nucleotide deletion of the intronic enhancer reveals an epigenetic hierarchy in immunoglobulin heavy chain locus activationTirtha Chakraborty
Laboratory of Cellular and Molecular Biology, National Institute on Aging, National Institutes of Health, Baltimore, MD 21224, USA
J Exp Med 206:1019-27. 2009..These observations define Emu-independent and Emu-dependent phases of locus activation that reveal an unappreciated epigenetic hierarchy in tissue-specific gene expression... - Synthetic spike-in standards for RNA-seq experimentsLichun Jiang
Section of Developmental Genomics, Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
Genome Res 21:1543-51. 2011..These quality metrics facilitate comparable analysis across different samples, protocols, and platforms... 
Dosage compensation goes globalYu Zhang
Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
Curr Opin Genet Dev 17:113-20. 2007..These approaches have resolved old controversies, suggested new questions, and promise to give us a more clear and comprehensive understanding of an old problem in molecular and cell biology...- Estimating system parameters from chaotic time series with synchronization optimized by a genetic algorithmChao Tao
Department of Surgery, Division of Otolaryngology Head and Neck Surgery, University of Wisconsin Medical School, Madison, Wisconsin 53792 7375, USA
Phys Rev E Stat Nonlin Soft Matter Phys 76:016209. 2007..Finally, a Chua's circuit experiment shows the capacity of this method to estimate multiple parameters of real systems... - Bayesian inference of epistatic interactions in case-control studiesYu Zhang
Department of Statistics, The Pennsylvania State University, Thomas Building 422A, University Park, Pennsylvania 16802, USA
Nat Genet 39:1167-73. 2007.... - Molecular cloning and expression analysis of a monosaccharide transporter gene OsMST4 from rice (Oryza sativa L.)Yongqin Wang
State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Datun Road, Beijing 100101, China
Plant Mol Biol 65:439-51. 2007..In addition, the cell type-specific expression patterns of OsMST4 in other sink and source tissues were also investigated, and its corresponding physiological roles were discussed... - Evolution of genes and genomes on the Drosophila phylogenyAndrew G Clark
Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA
Nature 450:203-18. 2007..These may prove to underlie differences in the ecology and behaviour of these diverse species... 
Evolution of protein-coding genes in DrosophilaAmanda M Larracuente
Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA
Trends Genet 24:114-23. 2008....- Tree-guided Bayesian inference of population structuresYu Zhang
Department of Statistics, The Pennsylvania State University, State College, PA, USA
Bioinformatics 24:965-71. 2008..As a result, they can lose sensitivity and specificity in detecting subtle stratifications. In addition, when a large number of genetic markers are used, many existing algorithms perform rather inefficiently... - [Expression profile of clock genes during the process of embryonic stem cells differentiation]Shu Xie
Department of Neurobiology, Xuanwu Hospital, Capital Medical University, Beijing 100053, China
Zhonghua Yi Xue Za Zhi 87:3203-7. 2007..To analysis the expression profile of7 clock genes during mouse embryonic stem cell (mES) differentiation... - The molecular mechanism governing the oncogenic potential of SOX2 in breast cancerYupeng Chen
Department of Biochemistry and Molecular Biology, Peking University Health Science Center, Beijing, China
J Biol Chem 283:17969-78. 2008..Our experiments not only determined a role for SOX2 in mammary tumorigenesis but also revealed another activity of the multifunctional protein, beta-catenin... - YY1 restrained cell senescence through repressing the transcription of p16Xiuli Wang
Institute of Genetics and Cytology, Northeast Normal University, Changchun 130024, P R China
Biochim Biophys Acta 1783:1876-83. 2008..Overall, data from this study suggest that YY1, HDAC3 and HDAC4 restrained cell senescence by repressing p16(INK4a) expression through an epigenetic modification of histones... - Farnesoid X receptor induces GLUT4 expression through FXR response element in the GLUT4 promoterHong Shen
Drug Discovery and Design Center, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, China
Cell Physiol Biochem 22:1-14. 2008..All these data thereby implied that FXR is a new transcription factor of GLUT4, further elucidating the potential role for FXR in glucose metabolism... - A collection of 10,096 indica rice full-length cDNAs reveals highly expressed sequence divergence between Oryza sativa indica and japonica subspeciesXiaohui Liu
National Center for Gene Research and Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 500 Caobao Road, Shanghai 200233, China
Plant Mol Biol 65:403-15. 2007..These variations might distinguish the phenotypic changes of the two cultivated rice subspecies indica and japonica. Analysis of these cDNAs extends known rice genes and identifies new ones in rice... - Improving the prediction of human microRNA target genes by using ensemble algorithmXingqi Yan
The National Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences and Peking Union Medical College, Tsinghua University, Beijing, China
FEBS Lett 581:1587-93. 2007..Finally, we applied our algorithm on the whole prediction data set provided by miRanda website. The results are available at http://www.biosino.org/~kanghu/mRTP/mRTP.html... - Molecular cloning and characterization of CT120, a novel membrane-associated gene involved in amino acid transport and glutathione metabolismXianghuo He
State Key Laboratory of Oncogenes and Related Genes, Shanghai Cancer Institute, Shanghai 200032, People s Republic of China
Biochem Biophys Res Commun 297:528-36. 2002.... - Sequence and analysis of rice chromosome 4Qi Feng
National Center for Gene Research, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 500 Caobao Road, Shanghai 200233, China
Nature 420:316-20. 2002..By contrast, there is little conservation in gene order between rice and Arabidopsis... - Sequence variations of simple sequence repeats on chromosome-4 in two subspecies of the Asian cultivated riceCan Li
National Center for Gene Research, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 500 Caobao Road, Shanghai 200233, China
Theor Appl Genet 108:392-400. 2004..These results provide a great opportunity for SSR-based marker development and comparative genome analysis of the two subspecies of the Asian cultivated rice... - Biodegradation of polycyclic aromatic hydrocarbons by Pichia anomalaFeng Pan
State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, P.O. Box 2871, Beijing 100085, PR China
Biotechnol Lett 26:803-6. 2004..Chrysene, which remained in the mixture even after 96 h, could be degraded along with naphthalene. Chrysene at 0.7 and 1 mg l(-1), in the presence of 4.3 and 65 mg naphthalene l(-1), respectively, was removed within 96 h... - Zebrafish Dpr2 inhibits mesoderm induction by promoting degradation of nodal receptorsLixia Zhang
Laboratory of Developmental Biology, Ministry of Education MOE, Department of Biological Sciences and Biotechnology, Tsinghua University, Beijing 100084, China
Science 306:114-7. 2004..Dpr2 is localized in late endosomes, binds to the TGFbeta receptors ALK5 and ALK4, and accelerates lysosomal degradation of these receptors... - Pur alpha and Sp8 as opposing regulators of neural gata2 expressionWilliam Todd Penberthy
Department of Molecular, Cell, and Developmental Biology, University of California Los Angeles, Los Angeles, CA 90095 1606, USA
Dev Biol 275:225-34. 2004.... - [Study on the gene expression profiling of caudal nuclei in Parkinson disease]Yan-ning Cai
Department of Neurological Molecular Biology, Institute of Geriatrics, Xuewu Hospital, Capital Medical University, Beijing 100053, China
Zhonghua Yi Xue Za Zhi 84:1191-3. 2004 - An Eulerian path approach to local multiple alignment for DNA sequencesYu Zhang
Department of Mathematics, University of Southern California, 1042 West 36th Place, DRB289, Los Angeles, CA 90089-1113, USA
Proc Natl Acad Sci U S A 102:1285-90. 2005..We compare the results with Alus marked by repeatmasker, where the two programs are in good agreement. Our method is robust under various conditions and superior to other methods in terms of efficiency and accuracy... - Cloning and characterization of mouse homolog of the CXC chemokine receptor CXCR1Wenxian Fu
Department of Immunology, Peking University Health Science Center, Beijing 100083, China
Cytokine 31:9-17. 2005.... - Serial analysis of gene expression study of a hybrid rice strain (LYP9) and its parental cultivarsJingyue Bao
Beijing Genomics Institute, Chinese Academy of Sciences, Beijing 101300, China
Plant Physiol 138:1216-31. 2005..Our study adds a new set of data crucial for the understanding of molecular mechanisms of heterosis and gene regulation networks of the cultivated rice... - Estimating immunoregulatory gene networks in human herpesvirus type 6-infected T cellsTomoiku Takaku
First Department of Internal Medicine, Tokyo Medical University, Tokyo, Japan
Biochem Biophys Res Commun 336:469-77. 2005..This study describes a novel approach to find genes related with the complex host-virus interaction using microarray data employing the Bayesian statistical framework... - Genetic analysis of Arabidopsis GATA transcription factor gene family reveals a nitrate-inducible member important for chlorophyll synthesis and glucose sensitivityYong Mei Bi
Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, Canada N1G 2W1
Plant J 44:680-92. 2005..These observations suggest a function for GNC in regulating carbon and nitrogen metabolism... - Refinement of optical map assembliesAnton Valouev
MCB 1050 Childs Way, Los Angeles, CA 90089 2910, USA
Bioinformatics 22:1217-24. 2006..Optical maps are assembled to cover the whole genome, and the accuracy of assembly is critical... - Differentiation of Escherichia coli pathotypes by oligonucleotide spotted arrayRaghavan U M Palaniappan
Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA
J Clin Microbiol 44:1495-501. 2006..coli pathotypes and could also have a significant impact on the epidemiological analysis of E. coli infections... - Effect of tea polyphenol on cytokine gene expression in rats with alcoholic liver diseaseXing Guo Zhang
Department of Pharmacology, First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou 310003, China
Hepatobiliary Pancreat Dis Int 5:268-72. 2006..Green tea polyphenols have both antioxidant and antiinflammatory properties. This study was designed to evaluate the effect of tea polyphenol (TP) on alcohol-induced liver injury in rats... - A coalescence-guided hierarchical Bayesian method for haplotype inferenceYu Zhang
Department of Statistics, Harvard University, Cambridge, MA 02138, USA
Am J Hum Genet 79:313-22. 2006.... - Inhibition of adenovirus-mediated human MAGE-D1 on angiogenesis in vitro and in vivoWei Gan Shen
Medical College of Yangzhou University, 16 Huai Hai Road, Yangzhou 225000, Jiangsu Province, PR China
Mol Cell Biochem 300:89-99. 2007.... - A new haplogroup pattern displayed in Fujian Han in ChinaMin Yu
Department of Biology, Harbin Medical University, China
J Hum Genet 47:95-8. 2002..In addition, M122C frequency was only 22.78%, and M45A and M103T were default. The distinctive haplogroup frequencies (H1, H5, and H6/7/8) imply that the haplogroup pattern is a relatively ancestral and interim type...