Wei Zhang

Summary

Affiliation: Illinois Institute of Technology
Country: USA

Publications

  1. ncbi Probing genomic diversity and evolution of Escherichia coli O157 by single nucleotide polymorphisms
    Wei Zhang
    Foodborne and Diarrheal Diseases Branch, National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia 30333, USA
    Genome Res 16:757-67. 2006
  2. ncbi Identification of a new gene encoding EPSPs with high glyphosate resistance from the metagenomic library
    Dan Jin
    College of Life Sciences, Key Laboratory of Bio resources and Eco environment, The Ministry of Education, Sichuan University, 610064, Chengdu, China
    Curr Microbiol 55:350-5. 2007
  3. ncbi Variation in virulence among clades of Escherichia coli O157:H7 associated with disease outbreaks
    Shannon D Manning
    Microbial Evolution Laboratory, National Food Safety and Toxicology Center, Michigan State University, East Lansing, MI 48824, USA
    Proc Natl Acad Sci U S A 105:4868-73. 2008
  4. ncbi Probing the pan-genome of Listeria monocytogenes: new insights into intraspecific niche expansion and genomic diversification
    Xiangyu Deng
    National Center for Food Safety and Technology, Illinois Institute of Technology, Summit, Illinois 60501, USA
    BMC Genomics 11:500. 2010
  5. ncbi Efficient oligonucleotide probe selection for pan-genomic tiling arrays
    Adam M Phillippy
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Bioinformatics 10:293. 2009
  6. ncbi Functional analysis of ycfR and ycfQ in Escherichia coli O157:H7 linked to outbreaks of illness associated with fresh produce
    Kaiping Deng
    U S Food and Drug Administration, National Center for Food Safety and Technology, 6502 S Archer Rd, Summit Argo, IL 60501, USA
    Appl Environ Microbiol 77:3952-9. 2011
  7. ncbi Transcriptomic responses of Salmonella enterica serovars Enteritidis and Typhimurium to chlorine-based oxidative stress
    Siyun Wang
    National Center for Food Safety and Technology, Illinois Institute of Technology, Summit Argo, IL 60501, USA
    Appl Environ Microbiol 76:5013-24. 2010
  8. ncbi Transcriptomic response of Listeria monocytogenes during the transition to the long-term-survival phase
    Jia Wen
    Department of Food Science, Pennsylvania State University, University Park, Pennsylvania 16802, USA
    Appl Environ Microbiol 77:5966-72. 2011
  9. ncbi A novel gene detection method based on period-3 property
    Lun Huang
    Department of Electrical and Computer Engineering, Illinois Institute of Technology, Chicago, 60616, USA
    Conf Proc IEEE Eng Med Biol Soc 2009:3857-60. 2009
  10. ncbi Survival and heat resistance of Salmonella enterica and Escherichia coli O157:H7 in peanut butter
    Yingshu He
    Institute for Food Safety and Health, Illinois Institute of Technology, 6502 South Archer Road, Bedford Park, IL 60501, USA
    Appl Environ Microbiol 77:8434-8. 2011

Collaborators

  • Adam M Phillippy
  • Weihong Qi
  • Thomas S Whittam
  • David Alland
  • Eija K Hyytia-Trees
  • Lun Huang
  • Steven L Salzberg
  • Qian Wang
  • Edward G Dudley
  • TOM ALBERT
  • Yi Chen
  • Lei Gao
  • Can Li
  • Junping Peng
  • Wei Chen
  • Jia Li
  • Ying Huang
  • Xiangyu Deng
  • Kexin Chen
  • Yuan Yang
  • Siyun Wang
  • Zengxin Li
  • Kaiping Deng
  • Mary Lou Tortorello
  • Min Lin
  • Wei Lu
  • Sizhong Zhang
  • Ming Chen
  • Haitao Zhang
  • Xiangwei Huang
  • Yongliang Yan
  • Shuzhen Ping
  • Yongxin Ma
  • Dan Jin
  • Qingyi Wei
  • Baojun Li
  • Demin Zhang
  • Li Lin
  • Hongwei Zhang
  • Changbin Chen
  • Yue-fang Ye
  • Hong Ma
  • Yingshu He
  • Jia Wen
  • Xiaoqian Rui
  • Ilya Shmulevich
  • Xiaoduo Lu
  • Lei L Chen
  • Xin Jin
  • Yanjuan Xin
  • Shannon D Manning
  • Rong Stephanie Huang
  • Aimin Liang
  • Xiao Dong Zhu
  • Qinghua Nie
  • Qian Ren
  • Robin D Clugston
  • Dan Su
  • Federico Innocenti
  • Jiying Sha
  • Shiwei Duan
  • Nancy J Cox
  • Emily O Kistner
  • M Eileen Dolan
  • Wasim K Bleibel
  • Liang Li
  • Shijie Wang
  • Hui Cai
  • Erich M Sturgis
  • Adel K El-Naggar
  • Li-E Wang
  • Ping Zhong
  • DeTian Cai
  • Li E Wang
  • Zhibin Hu
  • Zhou Cun A
  • R Stephanie Huang
  • Xinyi He
  • Teri T B Ngo
  • Will P Walker
  • Gary K Chen
  • Asela J Wijeratne
  • A Zhoucun
  • Zhoucun A
  • Chuanli Ju
  • Mei Sun
  • Ljudmilla Timofejeva
  • Quanfeng Liang
  • Ren Zhou
  • Guanfang Wang

Detail Information

Publications71

  1. ncbi Probing genomic diversity and evolution of Escherichia coli O157 by single nucleotide polymorphisms
    Wei Zhang
    Foodborne and Diarrheal Diseases Branch, National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia 30333, USA
    Genome Res 16:757-67. 2006
    ..Functional characterization of nucleotide polymorphisms should shed new insights on the evolution, epidemiology, and pathogenesis of STEC O157 and related pathogens...
  2. ncbi Identification of a new gene encoding EPSPs with high glyphosate resistance from the metagenomic library
    Dan Jin
    College of Life Sciences, Key Laboratory of Bio resources and Eco environment, The Ministry of Education, Sichuan University, 610064, Chengdu, China
    Curr Microbiol 55:350-5. 2007
    ..A His-tagged RD fusion protein was produced into E. coli to characterize the enzymatic properties of the RD EPSP protein...
  3. ncbi Variation in virulence among clades of Escherichia coli O157:H7 associated with disease outbreaks
    Shannon D Manning
    Microbial Evolution Laboratory, National Food Safety and Toxicology Center, Michigan State University, East Lansing, MI 48824, USA
    Proc Natl Acad Sci U S A 105:4868-73. 2008
    ..The ability to detect and rapidly genotype O157 strains belonging to such lineages is important and will have a significant impact on both disease diagnosis and treatment guidelines...
  4. ncbi Probing the pan-genome of Listeria monocytogenes: new insights into intraspecific niche expansion and genomic diversification
    Xiangyu Deng
    National Center for Food Safety and Technology, Illinois Institute of Technology, Summit, Illinois 60501, USA
    BMC Genomics 11:500. 2010
    ..Two of these lineages predominantly cause human sporadic and epidemic infections, whereas the third lineage has never been implicated in human disease outbreaks despite its overall conservation of many known virulence factors...
  5. ncbi Efficient oligonucleotide probe selection for pan-genomic tiling arrays
    Adam M Phillippy
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Bioinformatics 10:293. 2009
    ..Prior microarrays have included only a single strain per array or the conserved sequences of gene families. These arrays omit potentially important genes and sequence variants from the pan-genome...
  6. ncbi Functional analysis of ycfR and ycfQ in Escherichia coli O157:H7 linked to outbreaks of illness associated with fresh produce
    Kaiping Deng
    U S Food and Drug Administration, National Center for Food Safety and Technology, 6502 S Archer Rd, Summit Argo, IL 60501, USA
    Appl Environ Microbiol 77:3952-9. 2011
    ..These findings suggest that gene regulation may be a mechanism by which E. coli O157:H7 strain Sakai could survive in the postharvest processing environment...
  7. ncbi Transcriptomic responses of Salmonella enterica serovars Enteritidis and Typhimurium to chlorine-based oxidative stress
    Siyun Wang
    National Center for Food Safety and Technology, Illinois Institute of Technology, Summit Argo, IL 60501, USA
    Appl Environ Microbiol 76:5013-24. 2010
    ..enterica resistant or susceptible to certain types of environmental stresses, which in turn promotes the development of more effective hurdle interventions to reduce the risk of S. enterica contamination in the food supply...
  8. ncbi Transcriptomic response of Listeria monocytogenes during the transition to the long-term-survival phase
    Jia Wen
    Department of Food Science, Pennsylvania State University, University Park, Pennsylvania 16802, USA
    Appl Environ Microbiol 77:5966-72. 2011
    ..94), as the LTS cells rapidly resume metabolic activities and transit back to log phase with decreased baro- and thermotolerance...
  9. ncbi A novel gene detection method based on period-3 property
    Lun Huang
    Department of Electrical and Computer Engineering, Illinois Institute of Technology, Chicago, 60616, USA
    Conf Proc IEEE Eng Med Biol Soc 2009:3857-60. 2009
    ..These approaches result in improved computational techniques for the solution of useful problems in genomic information science and technology...
  10. ncbi Survival and heat resistance of Salmonella enterica and Escherichia coli O157:H7 in peanut butter
    Yingshu He
    Institute for Food Safety and Health, Illinois Institute of Technology, 6502 South Archer Road, Bedford Park, IL 60501, USA
    Appl Environ Microbiol 77:8434-8. 2011
    ..High carbohydrate content in peanut butter and low incubation temperature resulted in higher levels of bacterial survival during storage but lower levels of bacterial resistance to heat treatment...
  11. ncbi Transcriptome sequencing of Salmonella enterica serovar Enteritidis under desiccation and starvation stress in peanut oil
    Xiangyu Deng
    Institute for Food Safety and Health, Illinois Institute of Technology, 6502 S Archer Rd, Bedford Park, IL 60501, USA
    Food Microbiol 30:311-5. 2012
    ..In addition, non-coding RNAs may also play roles in Salmonella desiccation stress response. This is the first report of using RNA-seq technology in characterizing bacterial transcriptomes in a food matrix...
  12. ncbi Transcriptomic response of Escherichia coli O157:H7 to oxidative stress
    Siyun Wang
    National Center for Food Safety and Technology, Illinois Institute of Technology, Chicago, Illinois, USA
    Appl Environ Microbiol 75:6110-23. 2009
    ....
  13. ncbi Multi-virulence-locus sequence typing identifies single nucleotide polymorphisms which differentiate epidemic clones and outbreak strains of Listeria monocytogenes
    Yi Chen
    Department of Food Science, The Pennsylvania State University, University Park, PA 16802, USA
    J Clin Microbiol 45:835-46. 2007
    ..monocytogenes. SNPs in virulence genes appear to be excellent molecular markers for the epidemiological investigation of epidemics and outbreaks caused by L. monocytogenes...
  14. ncbi Evaluation of genetic variation contributing to differences in gene expression between populations
    Wei Zhang
    Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
    Am J Hum Genet 82:631-40. 2008
    ..We also provide an evaluation of the contributions of genetic variation and nongenetic factors to the population differences in gene expression...
  15. ncbi Identification and molecular analysis of the highly pathogenic duck hepatitis virus type 1 in Hubei province of China
    Xin Jin
    College of Veterinary Medicine, Huazhong Agricultural University, Wuhan 430070, People s Republic of China
    Res Vet Sci 85:595-8. 2008
    ..The new-identified JX strain was grouped into one lineage with A66 and C80 strains, which were also isolated from China...
  16. ncbi The PIT1 gene polymorphisms were associated with chicken growth traits
    Qinghua Nie
    Department of Animal Genetics, Breeding and Reproduction, College of Animal Science, South China Agricultural University, Guangzhou 510642, Guangdong, China
    BMC Genet 9:20. 2008
    ..In this study, five reported polymorphisms (MR1-MR5) of the PIT1 gene were genotyped in a full sib F2 resource population to evaluate their effects on growth, carcass and fatty traits in chickens...
  17. ncbi Gene expression in the developing diaphragm: significance for congenital diaphragmatic hernia
    Robin D Clugston
    University of Alberta, Department of Physiology, Edmonton, Alberta, Canada
    Am J Physiol Lung Cell Mol Physiol 294:L665-75. 2008
    ....
  18. ncbi Genetic analysis of attractin homologs
    Will P Walker
    Department of Biomedical Sciences, Cornell University, Ithaca, New York 14853, USA
    Genesis 45:744-56. 2007
    ..Thus, the two genes are redundant from the perspective of gain-of-function but not loss-of-function mutations...
  19. ncbi Genome-wide association analyses of expression phenotypes
    Gary K Chen
    Department of Epidemiology and Biostatistics, Institute for Human Genetics, University of California at San Francisco, 513 Parnassus Avenue, San Francisco, CA 94143, USA
    Genet Epidemiol 31:S7-S11. 2007
    ..Finally, for datasets with small sample sizes but a large number of features like the Genetic Analysis Workshop 15 dataset, machine learning approaches may be more practical than traditional parametric approaches...
  20. ncbi Immunoproteomics of extracellular proteins of Chinese virulent strains of Streptococcus suis type 2
    Wei Zhang
    Key Laboratory of Animal Disease Diagnostic and Immunology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China
    Proteomics 7:4468-76. 2007
    ..Genes for six of the differentially expressed proteins were found in both virulent strains, and of those were present in the avirulent stain...
  21. ncbi A comparative study on the phylogenetic diversity of culturable actinobacteria isolated from five marine sponge species
    Haitao Zhang
    Marine Bioproducts Engineering Group, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, China
    Antonie Van Leeuwenhoek 93:241-8. 2008
    ..Sponge species have been demonstrated here to vary as sources of culturable actinobacterial diversity, and the methods for sampling such diversity presented may be useful for improved sampling of such diversity...
  22. ncbi Single-nucleotide polymorphisms at the TP53-binding or responsive promoter regions of BAX and BCL2 genes and risk of squamous cell carcinoma of the head and neck
    Kexin Chen
    Department of Epidemiology, The University of Texas M D Anderson Cancer Center, 1515 Holcombe Boulevard, Houston, TX 77030, USA
    Carcinogenesis 28:2008-12. 2007
    ..Our data suggest that the risk of SCCHN may be associated with these two SNPs of BAX and BCL2 promoter regions, particularly among TP53 heterozygotes. Larger studies are needed to validate these findings...
  23. ncbi Random local neighbor joining: a new method for reconstructing phylogenetic trees
    Wei Zhang
    Institute of Bioinformatics and Systems Biology, MOE Key Laboratory of Bioinformatics, State Key Laboratory of Biomembrane and Membrane Biotechnology, Department of Biological Sciences and Biotechnology, Tsinghua University, Beijing 100084, China
    Mol Phylogenet Evol 47:117-28. 2008
    ..Thus, the number of different topologies and the proportion of "most frequent topology" can be used as auxiliary criteria to evaluate reliability of a phylogenetic tree...
  24. ncbi A single residue mutation of 5-enoylpyruvylshikimate-3-phosphate synthase in Pseudomonas stutzeri enhances resistance to the herbicide glyphosate
    Aimin Liang
    College of Biological Sciences, China Agricultural University, Beijing 100094, PR China
    Biotechnol Lett 30:1397-401. 2008
    ..The effect of the single residue mutation on glyphosate resistance was also analyzed using a computer-based three-dimensional model...
  25. ncbi The Arabidopsis MutS homolog AtMSH5 is required for normal meiosis
    Xiaoduo Lu
    School of Life Sciences, Lanzhou University, Lanzhou 730000, China
    Cell Res 18:589-99. 2008
    ..Taken together, the evidence indicates that AtMSH5 promotes homologous recombination through facilitating chiasma formation during prophase I in Arabidopsis...
  26. ncbi Genome-wide analysis of the cyclin family in Arabidopsis and comparative phylogenetic analysis of plant cyclin-like proteins
    Guanfang Wang
    Department of Biology and the Huck Institutes of Life Sciences, Pennsylvania State University, University Park, Pennsylvania 16802, USA
    Plant Physiol 135:1084-99. 2004
    ..Our study provides an opportunity to rapidly assess the position of plant cyclin genes in terms of evolution and classification, serving as a guide for further functional study of plant cyclins...
  27. ncbi Culture-independent nested PCR method reveals high diversity of actinobacteria associated with the marine sponges Hymeniacidon perleve and Sponge sp
    Yanjuan Xin
    Marine Bioproducts Engineering Group, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023, China
    Antonie Van Leeuwenhoek 94:533-42. 2008
    ..The presence of Acidimicrobium and mycobacteria within two sponges can lay the groundwork for attempts to culture these interesting bacteria for industrial applications...
  28. ncbi Single nucleotide polymorphism discovery and functional assessment of variation in the UDP-glucuronosyltransferase 2B7 gene
    Federico Innocenti
    Department of Medicine, The University of Chicago, Chicago, IL 60637, USA
    Pharmacogenet Genomics 18:683-97. 2008
    ..The genetic basis of interindividual variability in UGT2B7 function is unknown. This study aimed to discover novel gene variants of functional significance...
  29. ncbi Y chromosome haplogroups may confer susceptibility to partial AZFc deletions and deletion effect on spermatogenesis impairment
    Yuan Yang
    Department of Medical Genetics, West China Hospital, West China Medical School and State Key Laboratory of Biotherapy, Sichuan University, Gaopeng Street, Keyuan Road 4, Chengdu, Sichuan 610041, People s Republic of China
    Hum Reprod 23:2167-72. 2008
    ..With this in mind, we investigated the possible association between Y chromosome haplogroups and predisposition to partial AZFc deletions and their effect on spermatogenesis in a Chinese population...
  30. ncbi High expression of macrophage colony-stimulating factor in peritumoral liver tissue is associated with poor survival after curative resection of hepatocellular carcinoma
    Xiao Dong Zhu
    Liver Cancer Institute and Zhongshan Hospital, Fudan University, Shanghai 200032, China
    J Clin Oncol 26:2707-16. 2008
    ..To investigate prognostic values of the intratumoral and peritumoral expression of macrophage colony-stimulating factors (M-CSF) in hepatocellular carcinoma (HCC) patients after curative resection...
  31. ncbi Identification of genetic variants and gene expression relationships associated with pharmacogenes in humans
    Rong Stephanie Huang
    Section of Hematology Oncology, Department of Medicine, University of Chicago, Chicago, Illinois 60637, USA
    Pharmacogenet Genomics 18:545-9. 2008
    ..Our objective was to identify single nucleotide polymorphisms (SNPs) that potentially affected the expression of these genes or potential SNP-gene interactions involved to improve our understanding of genetic effects on drug therapy...
  32. ncbi Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501
    Yongliang Yan
    Biotechnology Research Institute, National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China
    Proc Natl Acad Sci U S A 105:7564-9. 2008
    ....
  33. ncbi Evolution from heterozygous to homozygous KIT mutation in gastrointestinal stromal tumor correlates with the mechanism of mitotic nondisjunction and significant tumor progression
    Lei L Chen
    Department of Internal Medicine, Division of Hematology Oncology, Huntsman Cancer Institute, University of Utah, Salt Lake City, UT 84112, USA
    Mod Pathol 21:826-36. 2008
    ....
  34. ncbi Gene cloning and expression analysis of ubiquitin derived from Musca domestica
    Qian Ren
    School of Life Sciences, Shandong University, Jinan, Shandong 250100, China
    Arch Insect Biochem Physiol 68:89-99. 2008
    ..After infection with gram-negative and gram-positive bacteria, Mub(S27) transcript level was upregulated. Mub(S27) transcript level was also regulated by heat or cold stress...
  35. ncbi Polymorphisms in microRNA targets: a gold mine for molecular epidemiology
    Kexin Chen
    Department of Epidemiology and Biostatistics, Tianjin Medical University Cancer Hospital and Institute, Tianjin 300060, People s Republic of China
    Carcinogenesis 29:1306-11. 2008
    ..The biological relevance of these polymorphisms in predicted microRNA-binding sites is beginning to be examined in large case-control studies...
  36. ncbi Mutation screening and association study of the TSSK4 Gene in Chinese infertile men with impaired spermatogenesis
    Dan Su
    Department of Medical Genetics, West China Hospital, Sichuan University, Renmin Nanlu, Chengdu, 610041, China
    J Androl 29:374-8. 2008
    ..Our investigation of TSSK4, a potentially important testicular gene, in Chinese infertile and control men identified the association of some single nucleotide polymorphisms in this gene with male infertility...
  37. ncbi Genetic diversity and drug resistance of human immunodeficiency virus type 1 (HIV-1) strains circulating in Shanghai
    Ping Zhong
    Department of AIDS and STD, Shanghai Municipal Center for Disease Control and Prevention, Shanghai, China
    AIDS Res Hum Retroviruses 23:847-56. 2007
    ..It is believed that this information may help to guide recommendations for diagnostic assays, vaccine design, and antiretroviral regimen strategies in China...
  38. ncbi Analysis of bacterial foodborne disease outbreaks in China between 1994 and 2005
    Shijie Wang
    Food Science and Technology College of Agriculture University of Hebei, Baoding, China
    FEMS Immunol Med Microbiol 51:8-13. 2007
    ..We hope that this review can be compared to reviews from other regions of the world, in an attempt to prevent future outbreaks from occurring...
  39. ncbi The common variant N372H in BRCA2 gene may be associated with idiopathic male infertility with azoospermia or severe oligozoospermia
    A Zhoucun
    Department of Medical Genetics, West China Hospital, Sichuan University, and Division of Human Morbid Genomics, National Key Laboratory of Biotherapy, Chengdu 610041, PR China
    Eur J Obstet Gynecol Reprod Biol 124:61-4. 2006
    ..To explore the possible association between the common single nucleotide polymorphism N372H in human breast cancer susceptibility gene 2 (BRCA2) and the idiopathic male infertility with azoospermia or severe oligozoospermia...
  40. ncbi Multi-virulence-locus sequence typing clarifies epidemiology of recent listeriosis outbreaks in the United States
    Yi Chen
    Department of Food Science, The Pennsylvania State University, University Park, PA 16802, USA
    J Clin Microbiol 43:5291-4. 2005
    ..MVLST demonstrated high epidemiological relevance and indicated that the two outbreaks were the result of one epidemic...
  41. ncbi Chromosome-encoded gene cluster for the metabolic pathway that converts aniline to TCA-cycle intermediates in Delftia tsuruhatensis AD9
    Quanfeng Liang
    Department of Microbiology, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Beijing 100081, P R China
    Microbiology 151:3435-46. 2005
    ..The tad gene cluster showed significant similarity in nucleotide sequence and genetic organization to the plasmid-encoded aniline degradation gene cluster of Pseudomonas putida UCC22...
  42. ncbi MDR1 genotype do not influence the absorption of a single oral dose of 100 mg talinolol in healthy Chinese males
    Wei xia Zhang
    Pharmacogenetics Research Institute, Institute of Clinical Pharmacology, Central South University, Changsha, Hunan 410078, China
    Clin Chim Acta 359:46-52. 2005
    ..We investigated the linkage between SNPs in exon 12 (C1236T), exon 21 (G2677T/A) and exon 26 (C3435T) of MDR1, and explored the effect of linked polymorphism on the absorption of talinolol after a single oral dose of 100 mg...
  43. ncbi Multiplex PCR assay simplifies serotyping and sequence typing of Listeria monocytogenes associated with human outbreaks
    Wei Zhang
    Department of Food Science, Pennsylvania State University, University Park, Pennsylvania 16802 2504, USA
    J Food Prot 68:1907-10. 2005
    ..monocytogenes similar to pulsed-field gel electrophoresis analysis...
  44. ncbi The Arabidopsis ROCK-N-ROLLERS gene encodes a homolog of the yeast ATP-dependent DNA helicase MER3 and is required for normal meiotic crossover formation
    Changbin Chen
    Department of Biology and the Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802, USA
    Plant J 43:321-34. 2005
    ....
  45. ncbi Phylogenetic analysis and developmental expression of thymosin-beta4 gene in amphioxus
    Xiangwei Huang
    Department of Biology, Shandong University, Shandong, Jinan, 250100, People's Republic of China
    Dev Genes Evol 215:364-8. 2005
    ..These results are interpreted to mean that thymosin-beta4 genes might play a conserved role in the patterning of chordate embryos and functions in adults...
  46. ncbi [The haplotypes of three single nucleotide polymorphisms in caspase-3 gene in Han nationality of Zhejiang province in China.]
    Yun Xie
    Institute of Pathology and Forensic Medicine and Research Center of Environment Genomics, School of Medicine, Zhejiang University, Hangzhou, Zhejiang, 310006 P. R. China
    Zhonghua Yi Xue Yi Chuan Xue Za Zhi 21:633-5. 2004
    ....
  47. ncbi Growing genetic regulatory networks from seed genes
    Ronaldo F Hashimoto
    Department of Electrical Engineering, Texas A and M University, College Station, TX, USA 77843, USA
    Bioinformatics 20:1241-7. 2004
    ..AVAILABILITY: Software for the seed-growing algorithm will be available at the website for Probabilistic Boolean Networks: http://www2.mdanderson.org/app/ilya/PBN/PBN.htm..
  48. ncbi Preferential reduction of dicentrics in reciprocal exchanges due to the combination of the size of broken chromosome segments by radiation
    Wei Zhang
    National Institute for Radiological Protection and Nuclear Safety, Chinese Center for Disease Control and Prevention, 100088 Beijing, China
    J Hum Genet 48:531-4. 2003
    ..It was suggested that there was a special mechanism causing preferential reduction of dicentrics in reciprocal exchanges originated from the heteromorphic size of broken chromosomes in the last combination...
  49. ncbi Rhodocista pekingensis sp. nov., a cyst-forming phototrophic bacterium from a municipal wastewater treatment plant
    Demin Zhang
    Institute of Microbiology, Chinese Academy of Sciences, Beijing 100080, PR China
    Int J Syst Evol Microbiol 53:1111-4. 2003
    ..The major cellular quinone was Q-9. The DNA G + C content of cells was 68.8 mol%. The type strain of Rhodocista pekingensis is 3-pT (=AS 1.2194T=JCM 11689T)...
  50. ncbi Rhodopseudomonas faecalis sp. nov., a phototrophic bacterium isolated from an anaerobic reactor that digests chicken faeces
    Demin Zhang
    Institute of Microbiology, Chinese Academy of Sciences, Beijing 100080, P.R. China
    Int J Syst Evol Microbiol 52:2055-60. 2002
    ..Therefore, the name Rhodopseudomonas faecalis sp. nov. was proposed for the new isolates. The type strain is gc(T) ( = AS1.2176(T) = JCM 11668(T))...
  51. ncbi Sequence and analysis of rice chromosome 4
    Qi 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...
  52. ncbi Gene perturbation and intervention in probabilistic Boolean networks
    Ilya Shmulevich
    Cancer Genomics Laboratory, University of Texas M D Anderson Cancer Center, 1515 Holcombe Blvd, Box 85, Houston, TX 77030, USA
    Bioinformatics 18:1319-31. 2002
    ..We consider the general question of the potential effect of individual genes on the global dynamical network behavior, both from the view of random gene perturbation as well as intervention in order to elicit desired network behavior...
  53. ncbi ASYMMETRIC LEAVES1, an Arabidopsis gene that is involved in the control of cell differentiation in leaves
    Yue Sun
    Shanghai Institute of Plant Physiology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China
    Planta 214:694-702. 2002
    ..High levels of AS1 expression were found in tissues with highly proliferative cells, which further suggests a role in cell division and early cell differentiation...
  54. ncbi Single nucleotide polymorphisms of the gonadotrophin-regulated testicular helicase (GRTH) gene may be associated with the human spermatogenesis impairment
    Zhoucun A
    Department of Medical Genetics, West China Hospital, Sichuan University, China
    Hum Reprod 21:755-9. 2006
    ..To test this hypothesis, we investigated the possible association between the variations of the GRTH gene and human spermatogenesis impairment...
  55. ncbi The Arabidopsis thaliana PARTING DANCERS gene encoding a novel protein is required for normal meiotic homologous recombination
    Asela J Wijeratne
    Intercollege Graduate Program in Plant Physiology, The Pennsylvania State University, University Park, PA 16802, USA
    Mol Biol Cell 17:1331-43. 2006
    ..Comparison to other genes with limited sequence similarity raises the possibility that PTD may present a previously unknown function conserved in divergent eukaryotic organisms...
  56. ncbi Genotypic and phenotypic characterization of Lactobacillus casei strains isolated from different ecological niches suggests frequent recombination and niche specificity
    Hui Cai
    Department of Food Science, 1605 Linden Dr, University of Wisconsin, Madison, WI 53706, USA
    Microbiology 153:2655-65. 2007
    ..casei. The L. casei population analysed in this study demonstrated both a high level of phenotypic and genotypic diversity, as well as specificity to different ecological niches...
  57. ncbi Analysis of a genomic island housing genes for DNA S-modification system in Streptomyces lividans 66 and its counterparts in other distantly related bacteria
    Xinyi He
    Laboratory of Microbial Metabolism and School of Life Science and Biotechnology, Shanghai Jiaotong University, Shanghai 200030, China
    Mol Microbiol 65:1034-48. 2007
    ..Comparison of dnd clusters in the 12 bacteria strongly suggests that these dnd-bearing elements might have evolved from a common ancestor similar to plasmid-originated chromosome II of Pseudoalteromonas haloplanktis TAC125...
  58. ncbi Polymorphic TP53BP1 and TP53 gene interactions associated with risk of squamous cell carcinoma of the head and neck
    Kexin Chen
    Department of Epidemiology, The University of Texas M D Anderson Cancer Center, Houston, Texas 77030, USA
    Clin Cancer Res 13:4300-5. 2007
    ....
  59. ncbi The breeding of two polyploid rice lines with the characteristic of polyploid meiosis stability
    DeTian Cai
    College of Life Science, Hubei University, Wuhan, 430062, China
    Sci China C Life Sci 50:356-66. 2007
    ..The selection of PMeS lines is the first step in polyploid rice breeding; their use will advance the progress of polyploid rice breeding, which will in turn offer a new way to breed super rice...
  60. ncbi Developmental expression of amphioxus RACK1
    Xiangwei Huang
    Institute of Developmental Biology, College of Life Science, China
    Sci China C Life Sci 50:329-34. 2007
    ..Its expression in cerebral vesicles and neural tubes was also weaker or disappeared. In the adult animal, AmphiRACK1 transcripts were detected in the epithelium of midgut diverticulus and gut, wheel organ, gill blood vessels and testis...
  61. ncbi A genome-wide approach to identify genetic variants that contribute to etoposide-induced cytotoxicity
    R Stephanie Huang
    Section of Hematology Oncology, Biostatistics Consulting Laboratory, Department of Health Studies, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 104:9758-63. 2007
    ..This unbiased method can be used to elucidate genetic variants contributing to a wide range of cellular phenotypes induced by chemotherapeutic agents...
  62. ncbi Phylogenetic analysis and expression pattern of the AmphiCaBP-like gene from amphioxus, encoding a novel member of the calmodulin-like subfamily
    Baojun Li
    Life Science School, Institute of Developmental Biology, Shandong University, China
    DNA Seq 18:228-34. 2007
    ..In adult amphioxus, the transcripts are found in the epithelial cells of the gut and midgut diverticulus, the wall of coelom, the branchia, the neural cord and gonads...
  63. ncbi The 1p-encoded protein stathmin and resistance of malignant gliomas to nitrosoureas
    Teri T B Ngo
    Surgical and Molecular Neuro oncology Unit, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA
    J Natl Cancer Inst 99:639-52. 2007
    ....
  64. ncbi Characterization of frequently deleted 6q locus in prostate cancer
    Mei Sun
    Center for Prostate Disease Research, Department of Surgery, Uniformed Services University of the Health Sciences, Rockville, Maryland 20832, USA
    DNA Cell Biol 25:597-607. 2006
    ..1, and deletions of this locus are frequently associated with prostate tumorigenesis. In the light of emerging role of noncoding RNAs in cancer biology including CaP, future investigations of 6qTSG11 locus is warranted...
  65. ncbi Single nucleotide polymorphism C677T in the methylenetetrahydrofolate reductase gene might be a genetic risk factor for infertility for Chinese men with azoospermia or severe oligozoospermia
    Zhou Cun A
    Department of Medical Genetics, West China Hospital, Sichuan University, Chengdu 610041, China
    Asian J Androl 9:57-62. 2007
    ....
  66. ncbi Culturable actinobacteria from the marine sponge Hymeniacidon perleve: isolation and phylogenetic diversity by 16S rRNA gene-RFLP analysis
    Haitao Zhang
    Marine Bioproducts Engineering Group, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
    Antonie Van Leeuwenhoek 90:159-69. 2006
    ..The dominant genus was Streptomyces, which represented 74% of the isolates. Three of the strains identified are candidates for new species...
  67. ncbi Cloning, chromosome mapping and expression analysis of an R2R3-MYB gene under-expressed in maize hybrid
    Chuanli Ju
    National Maize Improvement Center of China, China Agricultural University, Yuanmingyuan West Road, Haidian, 100094 Beijing, China
    Mol Biol Rep 33:103-10. 2006
    ..A possible role of ZmMYBL1 and its relation to maize heterosis were discussed based on these results...
  68. ncbi Effect of SLCO1B1 genetic polymorphism on the pharmacokinetics of nateglinide
    Wei Zhang
    Pharmacogenetics Research Institute, Institute of Clinical Pharmacology, Central South University, Changsha, Hunan, PR China
    Br J Clin Pharmacol 62:567-72. 2006
    ..Our objective was to assess the association between single nucleotide polymorphisms (SNPs) of SLCO1B1 and the pharmacokinetics of nateglinide...
  69. ncbi Role of BCRP 421C>A polymorphism on rosuvastatin pharmacokinetics in healthy Chinese males
    Wei Zhang
    Pharmacogenetics Research Institute, Institute of Clinical Pharmacology, Central South University, Changsha, Hunan 410078, P R China
    Clin Chim Acta 373:99-103. 2006
    ..Our objective was to determine the association between the most frequent single nucleotide polymorphisms (SNPs) of the BCRP (421C>A) and the pharmacokinetics of rosuvastatin...
  70. ncbi A novel microsatellite within intron 8 in caspase10 gene in Chinese of Han nationality
    Yue-fang Ye
    Institute of Pathology and Forensic Medicine and Research Center of Environment Enomics, Zhejiang University School of Medicine, Hangzhou, Zhejiang 310006, P.R. China
    Zhonghua Yi Xue Yi Chuan Xue Za Zhi 23:16-8. 2006
    ..The significance of the microsatellite in CASP10 gene in Chinese of Han nationality remains to be elucidated...
  71. ncbi NYD-SP6, a novel gene potentially involved in regulating testicular development/spermatogenesis
    Junhua Xiao
    Laboratory of Reproduction Medicine, Nanjing Medical University, Nanjing, 210029, People s Republic of China
    Biochem Biophys Res Commun 291:101-10. 2002
    ..Taken together, these results suggest that the putative protein of NYD-SP6 may play an important role in stimulating transcription involved in testicular development and/or spermatogenesis...