deoxyribonuclease hpaii

Summary

Summary: One of the Type II site-specific deoxyribonucleases (EC 3.1.21.4). It recognizes and cleaves the sequences C/CGG and GGC/C at the slash. HpaII is from Haemophilus parainfluenzae. Several isoschizomers have been identified. EC 3.1.21.-.

Top Publications

  1. ncbi HpaII and RsaI PCR-RFLPs within an intron of the porcine leptin receptor gene (LEPR) and its linkage mapping
    A Stratil
    Institute of Animal Physiology and Genetics, Academy of Sciences of the Czech Republic, Libechov, Czech Republic
    Anim Genet 29:405-6. 1998
  2. ncbi Inhibition of MspI cleavage activity by hydroxymethylation of the CpG site: a concern for DNA modification studies using restriction endonucleases
    Kenji Ichiyanagi
    Division of Epigenomics, Medical Institute of Bioregulation, Kyushu University, Fukuoka, Japan
    Epigenetics 7:131-6. 2012
  3. pmc Combination of methylated-DNA precipitation and methylation-sensitive restriction enzymes (COMPARE-MS) for the rapid, sensitive and quantitative detection of DNA methylation
    Srinivasan Yegnasubramanian
    Sidney Kimmel Comprehensive Cancer Center, The Johns Hopkins University School of Medicine 1650 Orleans Street, CRB 116, Baltimore, MD 21231, USA
    Nucleic Acids Res 34:e19. 2006
  4. ncbi Identification of genetically high risk individuals to lung cancer by DNA polymorphisms of the cytochrome P450IA1 gene
    K Kawajiri
    Department of Biochemistry, Saitama Cancer Center Research Institute, Japan
    FEBS Lett 263:131-3. 1990
  5. ncbi An asymmetric complex of restriction endonuclease MspI on its palindromic DNA recognition site
    Qian Steven Xu
    Department of Physiology and Biophysics, Boston University School of Medicine, 715 Albany Street, MA 02118, USA
    Structure 12:1741-7. 2004
  6. ncbi Genome-wide profiling of promoter methylation in human
    I Hatada
    Laboratory of Genome Science, Biosignal Genome Resource Center, Department of Molecular and Cellular Biology, Gunma University, Maebashi, Japan
    Oncogene 25:3059-64. 2006
  7. pmc A quantitative HpaII-PCR assay to measure methylation of DNA from a small number of cells
    J Singer-Sam
    Division of Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010
    Nucleic Acids Res 18:687. 1990
  8. ncbi Association of genetic polymorphism in GH gene with milk production traits in Beijing Holstein cows
    Guo Li Zhou
    College of Life Science, Liaocheng University, Liaocheng, Shandong 252059, People s Republic of China
    J Biosci 30:595-8. 2005
  9. ncbi Molecular analysis of jejunal, ileal, caecal and recto-sigmoidal human colonic microbiota using 16S rRNA gene libraries and terminal restriction fragment length polymorphism
    Hidenori Hayashi
    Microbe Division Japan Collection of Microorganisms, RIKEN BioResource Center, Saitama 351 0198, Japan
    J Med Microbiol 54:1093-101. 2005
  10. ncbi MspI polymorphisms in the 3rd intron of the swine POU1F1 gene and their associations with growth performance
    Chengyi Song
    College of Animal Science and Technology, Yangzhou University, Yangzhou City, 12 Wenhui East Road, Jiangsu Province 225009, P R China
    J Appl Genet 46:285-9. 2005

Detail Information

Publications146 found, 100 shown here

  1. ncbi HpaII and RsaI PCR-RFLPs within an intron of the porcine leptin receptor gene (LEPR) and its linkage mapping
    A Stratil
    Institute of Animal Physiology and Genetics, Academy of Sciences of the Czech Republic, Libechov, Czech Republic
    Anim Genet 29:405-6. 1998
  2. ncbi Inhibition of MspI cleavage activity by hydroxymethylation of the CpG site: a concern for DNA modification studies using restriction endonucleases
    Kenji Ichiyanagi
    Division of Epigenomics, Medical Institute of Bioregulation, Kyushu University, Fukuoka, Japan
    Epigenetics 7:131-6. 2012
    ..Therefore, DNA modification studies that use MspI, for example, reduced representation bisulfite shotgun sequencing, quantitative analysis of 5-hmC, and cleavage-sensitivity analysis, should be carefully interpreted...
  3. pmc Combination of methylated-DNA precipitation and methylation-sensitive restriction enzymes (COMPARE-MS) for the rapid, sensitive and quantitative detection of DNA methylation
    Srinivasan Yegnasubramanian
    Sidney Kimmel Comprehensive Cancer Center, The Johns Hopkins University School of Medicine 1650 Orleans Street, CRB 116, Baltimore, MD 21231, USA
    Nucleic Acids Res 34:e19. 2006
    ..This novel technology could significantly improve our ability to detect CGI hypermethylation...
  4. ncbi Identification of genetically high risk individuals to lung cancer by DNA polymorphisms of the cytochrome P450IA1 gene
    K Kawajiri
    Department of Biochemistry, Saitama Cancer Center Research Institute, Japan
    FEBS Lett 263:131-3. 1990
    ..This is the first report to identify the genetically high risk individuals to lung cancer at the gene level...
  5. ncbi An asymmetric complex of restriction endonuclease MspI on its palindromic DNA recognition site
    Qian Steven Xu
    Department of Physiology and Biophysics, Boston University School of Medicine, 715 Albany Street, MA 02118, USA
    Structure 12:1741-7. 2004
    ..A few possible pathways are discussed for MspI to cut both strands of DNA, either as a monomer or dimer...
  6. ncbi Genome-wide profiling of promoter methylation in human
    I Hatada
    Laboratory of Genome Science, Biosignal Genome Resource Center, Department of Molecular and Cellular Biology, Gunma University, Maebashi, Japan
    Oncogene 25:3059-64. 2006
    ..Genome-wide analysis of hypomethylated promoter sequences in cancer demonstrated low CG/GC ratio of these sequences, suggesting that CpG-poor genes are sensitive to demethylation activity in cancer...
  7. pmc A quantitative HpaII-PCR assay to measure methylation of DNA from a small number of cells
    J Singer-Sam
    Division of Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010
    Nucleic Acids Res 18:687. 1990
  8. ncbi Association of genetic polymorphism in GH gene with milk production traits in Beijing Holstein cows
    Guo Li Zhou
    College of Life Science, Liaocheng University, Liaocheng, Shandong 252059, People s Republic of China
    J Biosci 30:595-8. 2005
    ..The A/A cows yielded more milk protein than A/B individuals (P less than 0.01 for lactations I, II, and III). The A/A cows produced milk of higher protein content than of A/B individuals (P less than 0.05 only in lactation II)...
  9. ncbi Molecular analysis of jejunal, ileal, caecal and recto-sigmoidal human colonic microbiota using 16S rRNA gene libraries and terminal restriction fragment length polymorphism
    Hidenori Hayashi
    Microbe Division Japan Collection of Microorganisms, RIKEN BioResource Center, Saitama 351 0198, Japan
    J Med Microbiol 54:1093-101. 2005
    ..The results showed marked individual differences in the composition of microbiota in each region...
  10. ncbi MspI polymorphisms in the 3rd intron of the swine POU1F1 gene and their associations with growth performance
    Chengyi Song
    College of Animal Science and Technology, Yangzhou University, Yangzhou City, 12 Wenhui East Road, Jiangsu Province 225009, P R China
    J Appl Genet 46:285-9. 2005
    ..05). All measured growth traits, except for body weight at birth (BWB), showed higher values in DD pigs. The D allele had a favorable positive effect on growth traits. Thus POU1F1 is a potential major gene or marker for growth traits...
  11. ncbi Identification of mutans streptococci by restriction fragment length polymorphism analysis of polymerase chain reaction-amplified 16S ribosomal RNA genes
    T Sato
    Division of Oral Ecology and Biochemistry, Tohoku University Graduate School of Dentistry, Sendai, Japan
    Oral Microbiol Immunol 18:323-6. 2003
    ..Therefore, 16S rRNA genes PCR-RFLP, using HpaII and HaeIII, could be an alternative method for the identification of mutans streptococci, and may be applicable for large-scale studies on the cariogenicity of mutans streptococci...
  12. ncbi Archaic structure of the gene encoding transcription factor USF
    Q Lin
    Department of Molecular Genetics, University of Texas M D Anderson Cancer Center, Houston 77030
    J Biol Chem 269:23894-903. 1994
    ..Transient cotransfection assays revealed that the presence or absence of the amino acid sequences encoded by exon 4 affects considerably the transcription activation properties of the USF2 protein...
  13. ncbi Demethylation in the 5'-flanking region of mouse cellular retinoic acid binding protein-I gene is associated with its high level of expression in mouse embryos and facilitates its induction by retinoic acid in P19 embryonal carcinoma cells
    L N Wei
    Department of Pharmacology, University of Minnesota Medical School, Minneapolis 55455
    Dev Dyn 201:1-10. 1994
    ..In contrast, all the Hpa II sites in the structural gene portion, at least in the first two exons, are fully demethylated at the C residues...
  14. ncbi Leu-676-Pro mutation of the androgen receptor causes complete androgen insensitivity syndrome in a large Hutterite kindred
    D D Belsham
    Department of Human Genetics, University of Manitoba, Winnipeg, Canada
    Hum Mutat 5:28-33. 1995
    ..The mutation can easily be detected by MspI digestion of the polymerase chain reaction (PCR) amplified exon 4 product...
  15. pmc Structure of HinP1I endonuclease reveals a striking similarity to the monomeric restriction enzyme MspI
    Zhe Yang
    Department of Biochemistry, Emory University School of Medicine 1510 Clifton Road, Atlanta, GA 30322, USA
    Nucleic Acids Res 33:1892-901. 2005
    ..A possible functional link between this unusual dimerization mode and the tetrameric restriction enzymes is discussed...
  16. pmc Genotyping of porcine endogenous retroviruses from a family of miniature swine
    Gary Quinn
    Immerge BioTherapeutics Inc, Cambridge, Massachusetts 02139, USA
    J Virol 78:314-9. 2004
    ....
  17. ncbi Polymorphism of tumor necrosis factor-beta and alcohol dehydrogenase genes and alcoholic brain atrophy in Japanese patients
    M Yamauchi
    Division of Gastroenterology and Hepatology, Jikei University School of Medicine, Tokyo, Japan
    Alcohol Clin Exp Res 25:7S-10S. 2001
    ..Alcohol abuse can induce brain atrophy, but it only occurs in some alcoholics. Many inflammatory cytokines such as tumor necrosis factor (TNF) are produced rapidly in the brain by experimental or clinical injury...
  18. ncbi Genetic variation in the porcine myogenin gene locus
    A Soumillion
    DLO Institute for Animal Science and Health ID DLO, P O Box 65, 8200 AB Lelystad, The Netherlands
    Mamm Genome 8:564-8. 1997
    ..The PCR-RFLP tests and microsatellite markers on Chr 9 offer the possibility to genotype large numbers of pigs for studies of genetic linkage to meat deposition and growth characteristics...
  19. ncbi Role of genetic factors (CETP gene Taq I B polymorphism and Apo A-I gene Msp I polymorphism) in serum HDL-C levels in women
    Y Motohashi
    Department of Internal Medicine, Keio University School of Medicine, Japan
    Nutr Metab Cardiovasc Dis 14:6-14. 2004
    ....
  20. ncbi Amplified ribosomal DNA restriction analysis for the characterization of Azotobacteraceae: a contribution to the study of these free-living nitrogen-fixing bacteria
    Lucia Aquilanti
    Dipartimento di Scienze degli Alimenti, Universita Politecnica delle Marche, Via Brecce Bianche, 60131 Ancona, Italy
    J Microbiol Methods 57:197-206. 2004
    ..Cluster analysis was successfully employed for the identification of members of the family Azotobacteraceae, being assignation into species of the isolates confirmed by means of partial 16S rRNA gene sequencing...
  21. ncbi Expression pattern and mapping of the murine versican gene (Cspg2) to chromosome 13
    M F Naso
    Department of Pathology, Anatomy and Cell Biology, Thomas Jefferson University, Philadelphia, Pennsylvania 19107, USA
    Genomics 29:297-300. 1995
    ..Using interspecific backcross analysis, we assigned the versican gene (Cspg2) to mouse chromosome 13, in a region that is syntenic with the long arm of human chromosome 5 where the human CSPG2 gene is located...
  22. ncbi [Molecular divergence of the soil yeasts Williopsis sensu stricto]
    E S Naumova
    Mikrobiologiia 73:768-76. 2004
    ..The latter have unique PCR profiles and differ in the nucleotide sequences of ITS1 and ITS2 fragments of rDNA. Possible variations in the results obtained with different molecular methods are discussed...
  23. ncbi cDNA cloning, chromosomal mapping, and functional characterization of the human peroxisome proliferator activated receptor
    T Sher
    Laboratory of Molecular Carcinogenesis, National Cancer Institute, Bethesda, Maryland 20892
    Biochemistry 32:5598-604. 1993
    ..These results indicate that the PPAR is present in humans in a form that is functional and can trans-activate response elements derived from two different genes, the rat ACO and the rabbit CYP4A6...
  24. ncbi Molecular analysis of human and rat calmodulin complementary DNA clones. Evidence for additional active genes in these species
    B Sengupta
    Division of Intramural Research Programs, National Institute of Mental Health, Bethesda, Maryland 20892
    J Biol Chem 262:16663-70. 1987
    ..Transcripts of lambda rCB1 and lambda hCE1 were observed in all tissues examined indicating the absence of tissue-specific expression. Calmodulin gene polymorphisms were detected using TaqI, HindIII, and MspI...
  25. pmc Appraisal of genetic and epigenetic congruity of a monozygotic twin pair discordant for schizophrenia
    P McDonald
    J Med Genet 40:E16. 2003
  26. pmc Three RFLPs for pZ11 (DXS540) in the choroideremia gene at Xq21.2
    C M Molloy
    Department of Human Genetics, University Hospital, Nijmegen, The Netherlands
    Nucleic Acids Res 20:1434. 1992
  27. ncbi Parental imprinting: potentially active chromatin of the repressed maternal allele of the mouse insulin-like growth factor II (Igf2) gene
    H Sasaki
    Department of Molecular Embryology, AFRC Institute of Animal Physiology and Genetics Research, Babraham, Cambridge, UK
    Genes Dev 6:1843-56. 1992
    ..The differential activity of the parental Igf2 alleles could be achieved through epigenetic modifications situated outside the promoters or by subtle and yet unidentified modifications at the promoters...
  28. ncbi Human gastric cathepsin E gene. Multiple transcripts result from alternative polyadenylation of the primary transcripts of a single gene locus at 1q31-q32
    T Azuma
    Department of Molecular Biology and Genetics, Wayne State University School of Medicine, Detroit, Michigain 48201
    J Biol Chem 267:1609-14. 1992
    ..6- and 2.1-kilobase transcripts which constituted greater than 95% of CTSE transcripts found in the stomach...
  29. ncbi Rare McArdle disease locus polymorphic site on 11q13 contains CpG sequence
    R V Lebo
    Department of Obstetrics, Gynecology, University of California, San Francisco 94143 0720
    Hum Genet 86:17-24. 1990
    ..Fluorescence in situ hybridization sublocalized this gene to proximal band 11q13, establishing a point of cross-reference between the physical and genetic maps...
  30. ncbi Human prolactin gene expression: positive correlation between site-specific methylation and gene activity in a set of human lymphoid cell lines
    B Gellersen
    Institute for Hormone and Fertility Research, Hamburg, Federal Republicof Germany
    Mol Endocrinol 4:1874-86. 1990
    ..Contrasting the generally favored inverse relationship between methylation and transcriptional activity of a gene we describe a system in which site-specific methylation is positively correlated with gene expression...
  31. ncbi [Susceptibility to endometriosis in women of Han Nationality in Guangdong Province associated with Msp I polymorphisms of cytochrome P450 1A1 gene]
    Dong xian Peng
    Department of Obstetrics and Gynecology, Zhujiang Hospital, First Military Medical University, Guangzhou 510282, China
    Di Yi Jun Yi Da Xue Xue Bao 22:814-6. 2002
    ..To assess the possible association of the Msp I polymorphisms of cytochrome P4501A1(CYP1A1) gene with the susceptibility to endometriosis in women of Han Nationality in Guangdong Province...
  32. ncbi The genes for the inter-alpha-inhibitor family share a homologous organization in human and mouse
    J P Salier
    Institut National de la Sante et de la Recherche Medicale, Unit 78, Boisguillaume, France
    Mamm Genome 2:233-9. 1992
    ..Therefore, a similar number and arrangement of I alpha I genes is found in mouse and human, including the triplication of an H gene ancestor. These results point to an ancient origin of this complex set of genes...
  33. pmc The neurofibroma in von Recklinghausen neurofibromatosis has a unicellular origin
    G R Skuse
    Division of Genetics, University of Rochester School of Medicine, NY
    Am J Hum Genet 49:600-7. 1991
    ..By this assay, neurofibromas from all eight appeared monoclonal in origin. These results suggest that benign neurofibromas in NF1 arise by a mechanism that is different from that of malignant tumors.(ABSTRACT TRUNCATED AT 250 WORDS)..
  34. pmc Molecular characterization of the human delta-aminolevulinate dehydratase 2 (ALAD2) allele: implications for molecular screening of individuals for genetic susceptibility to lead poisoning
    J G Wetmur
    Department of Microbiology, Mount Sinai School of Medicine, New York, NY 10029
    Am J Hum Genet 49:757-63. 1991
    ..abstract truncated at 250 words)..
  35. pmc MspI polymorphism of the human CYP2E gene
    F Uematsu
    Department of Cancer Chemotherapy and Prevention, Tohoku University, Sendai, Japan
    Nucleic Acids Res 19:5797. 1991
  36. ncbi Genetic linkage of lung cancer-associated MspI polymorphisms with amino acid replacement in the heme binding region of the human cytochrome P450IA1 gene
    S Hayashi
    Department of Biochemistry, Saitama Cancer Center Research Institute
    J Biochem 110:407-11. 1991
    ....
  37. pmc Covalent genomic DNA modification patterns revealed by denaturing gradient gel blots
    Shari L Laprise
    Math Science Division, Babson College, Forest Street, Babson Park, MA 02457, USA
    Gene 391:45-52. 2007
    ..The results suggest that the use of DGG blots can provide a comprehensive and rapid method for comparing complex in vivo DNA modification patterns in normal adult somatic cells...
  38. ncbi Photocurrent response after enzymatic treatment of DNA duplexes immobilized on gold electrodes: electrochemical discrimination of 5-methylcytosine modification in DNA
    Hisatsugu Yamada
    Department of Energy and Hydrocarbon Chemistry, Graduate School of Engineering, Kyoto University, Katsura Campus, Kyoto 615 8510, Japan
    Org Biomol Chem 6:272-7. 2008
    ..This significant difference in the photocurrent response between mC and normal C residues in DNA on the gold electrodes is potentially applicable to the detection of mC modification in DNA...
  39. ncbi [Concordance between phenotypical features and PCR-REA for the identification of Malassezia spp]
    Cristina Elena Canteros
    Departamento Micología INEI ANLIS Dr Carlos G Malbrán A Vélez Sarsfield 563, C1282AFF, Ciudad Autonoma de Buenos Aires, Argentina
    Rev Iberoam Micol 24:278-82. 2007
    ..This result suggests that phenotypic studies are suitable for the presumptive identification of important Malassezia species in the clinical medical mycology laboratories where molecular methodologies are not available...
  40. ncbi Effect of restriction endonucleases on assessment of biodiversity of cultivable polar marine planktonic bacteria by amplified ribosomal DNA restriction analysis
    Yinxin Zeng
    Key Laboratory for Polar Science of State Oceanic Administration, Polar Research Institute of China, Shanghai, 200136, People s Republic of China
    Extremophiles 11:685-92. 2007
    ....
  41. ncbi Rapid genotyping of XbaI and MspI DNA polymorphisms of the human factor VIII gene: estimation of their combined heterozygosity in the Argentinean population
    Carlos D De Brasi
    Haematologica 88:232-4. 2003
  42. pmc Extensive maternal DNA hypomethylation in the endosperm of Zea mays
    Massimiliano Lauria
    Plant Biochemistry Laboratory, Department of Plant Biology, Royal Veterinary and Agricultural University, DK 1871 Frederiksberg C, Denmark
    Plant Cell 16:510-22. 2004
    ..The implications of extensive maternal hypomethylation with respect to endosperm development and epigenetic reprogramming will be discussed...
  43. ncbi Methylation of HpaII site at the human DXS16 locus on Xp22 as an assay for abnormal patterns of X inactivation
    M M Khalifa
    Department of Paediatrics, Queen s University and Kingston General, Ontario, Canada
    Am J Med Genet 98:64-9. 2001
    ..Of additional significance is this marker's proximity to the pseudoautosomal boundary on the X chromosome and its potential use in identifying rare events occurring in this region, which lead to escape from normal X-inactivation...
  44. ncbi DNA assembly and enzymatic cutting in solutions: a gold nanoparticle based SERS detection strategy
    Elizabeth Crew
    Department of Chemistry, State University of New York at Binghamton, Binghamton, New York 13902, USA
    Analyst 138:4941-9. 2013
    ....
  45. ncbi Induction and recovery of double-strand breaks in barley ribosomal DNA
    Vasilissa I Manova
    Department of Molecular Genetics, Bulgarian Academy of Sciences, Institute of Genetics Acad D Kostoff, Sofia 1113, Bulgaria
    DNA Repair (Amst) 2:983-90. 2003
    ..A tendency towards restoration of rDNA integrity after irradiation of both germinating and dry seeds was observed which is indicative for the efficient recovery of double-strand breaks in barley ribosomal DNA...
  46. ncbi Tests of linkage and association of the COL1A2 gene with bone phenotypes' variation in Chinese nuclear families
    F Y Deng
    Laboratory of Molecular and Statistical Genetics, College of Life Sciences, Hunan Normal University, Changsha, Hunan 410081, People s Republic of China
    Bone 33:614-9. 2003
    ..Due to the limited number of sib pairs in this sample, we did not find evidence of linkage. In summary, the MspI polymorphism is likely to be in linkage disequilibrium with a nearby functional mutation affecting BMD and bone area...
  47. ncbi Analysis of DNA methylation in Arabidopsis thaliana based on methylation-sensitive AFLP markers
    M T Cervera
    Departamento de Biotecnologia, SGIT, INIA, Ctra de la Coruña Km 7, 28049 Madrid, Spain
    Mol Genet Genomics 268:543-52. 2002
    ....
  48. ncbi Cloning method for taxonomic interpretation of T-RFLP patterns
    Alessio Mengoni
    Dipartimento di Biologia Animale e Genetica, Universita di Firenze, Italy
    Biotechniques 33:990, 992. 2002
  49. ncbi Microarray-based method to evaluate the accuracy of restriction endonucleases HpaII and MspI
    Peng Hou
    Chien Shiung WU Laboratory, Department of Biological Science and Medical Engineering, Southeast University, Nanjing, China
    Biochem Biophys Res Commun 314:110-7. 2004
    ..A good reproducibility was observed in several parallel experiments. The experiment indicates that the microarray technology has great potentials in high-throughput identifying important interactions between protein and DNA...
  50. pmc Evaluation of single CpG sites as proxies of CpG island methylation states at the genome scale
    Victor Barrera
    Institute of Predictive and Personalized Medicine of Cancer IMPPC, Badalona, Barcelona, Spain
    Nucleic Acids Res 40:11490-8. 2012
    ..This analysis provides a global validation framework for strategies based on the use of the methylation-sensitive HpaII restriction enzyme...
  51. ncbi A simple method for high-throughput quantification of genome-wide DNA methylation by fluorescence polarization
    Cunyou Zhao
    Division of Life Science and Applied Genomics Center, The Hong Kong University of Science and Technology, Hong Kong, China
    Epigenetics 7:335-9. 2012
    ..FPDM was also applied to measure dose-dependent DNA hypomethylation in human embryonic kidney 293T cells treated with the DNA-methyltransferase inhibitor 5-aza-dC...
  52. ncbi Electrochemical DNA base pairs quantification and endonuclease cleavage detection
    T Garcia
    Department of Analytical Chemistry and Instrumental Analysis, Universidad Autonoma de Madrid, Madrid, Spain
    Biosens Bioelectron 27:40-5. 2011
    ..The electrochemical approach developed offers the advantage of ease of performance in comparison to other previously described approaches, which are time-consuming and require sophisticated and expensive instrumentation...
  53. ncbi HELP (HpaII tiny fragment enrichment by ligation-mediated PCR) assay for DNA methylation profiling of primary normal and malignant B lymphocytes
    Rita Shaknovich
    Division of Immunopathology, Department of Pathology, Weill Medical College, Cornell University, New York, NY, USA
    Methods Mol Biol 632:191-201. 2010
    ..While we have mainly used a custom NimbleGen-Roche high-density oligonucleotide microarray containing 25,626 HpaII amplifiable fragments, many other microarray platforms or high throughput sequencing strategies can be used with HELP...
  54. ncbi T-RFLP-based mcrA gene analysis of methanogenic archaea in association with oral infections and evidence of a novel Methanobrevibacter phylotype
    M E Vianna
    Division of Oral Microbiology and Immunology, Department of Operative and Preventive Dentistry and Periodontology, Medical Faculty, RWTH Aachen University, Germany
    Oral Microbiol Immunol 24:417-22. 2009
    ..Here we assessed the prevalence and distribution of methanogens and possible associations with bacteria in oral biofilms...
  55. ncbi Epigenetic regulation of the imprinted U2af1-rs1 gene during retinoic acid-induced differentiation of embryonic stem cells
    Noelia Andollo
    Department of Cell Biology and Histology, Faculty of Medicine and Dentistry, University of the Basque Country, Leioa, Vizcaya, Spain
    Dev Growth Differ 48:349-60. 2006
    ..Our results suggest that the expression of the U2af1-rs1 gene would be regulated by changes in chromatin structure rather than by DNA methylation during the RA-induced process of differentiation of ES cells...
  56. ncbi Identification of differentially methylated sites within unmethylated DNA domains in normal and cancer cells
    Volodymyr Tryndyak
    Division of Biochemical Toxicology, National Center for Toxicological Research, Jefferson, AR 72079, USA
    Anal Biochem 356:202-7. 2006
    ....
  57. ncbi Restriction landmark genome scanning method using isoschizomers (MspI/HpaII) for DNA methylation analysis
    Tomoko Takamiya
    Department of Molecular Genetics, National Institute of Agrobiological Sciences, Tsukuba, Ibaraki, Japan
    Electrophoresis 27:2846-56. 2006
    ..Therefore, this result strongly indicates that the improved RLGS method is readily applicable to practical analyses of methylation dynamics, and provides clues to the relationship between methylation and gene expression...
  58. ncbi A common CYP1B1 polymorphism is associated with 2-OHE1/16-OHE1 urinary estrone ratio
    Valentina Paracchini
    Molecular and Genetic Epidemiology Unit, Fondazione Ospedale Policlinico IRCCS, Milan, Italy
    Clin Chem Lab Med 43:702-6. 2005
    ..These results suggest that the Leu/Val CYP1B1 polymorphism may modify estradiol metabolism...
  59. pmc Two crystal forms of the restriction enzyme MspI-DNA complex show the same novel structure
    Qian Steven Xu
    Department of Physiology and Biophysics, Boston University School of Medicine, Boston, MA 02118, USA
    Protein Sci 14:2590-600. 2005
    ..Combined with structural information from other solved structures of Type II restriction enzymes, the possible relationship between the structures of the enzymes and their cleavage behaviors is discussed...
  60. ncbi Association of calpastatin (CAST/MspI) polymorphism with meat quality parameters of fatteners and its interaction with RYR1 genotypes
    E Krzecio
    University of Podlasie, Chair of Pig Breeding and Meat Science, 08 110 Siedlce, 14 Prusa Str, Poland
    J Anim Breed Genet 122:251-8. 2005
    ..Significant interactions between CAST and RYR1 genotypes observed indicate that the quality of meat influenced by RYR1 genotype may be modified by the simultaneous influence of genotype as regards the CAST locus...
  61. ncbi Molecular identification and distribution profile of Candida species isolated from Iranian patients
    Rasoul Mohammadi
    Department of Medical Mycology, School of Medicine, Tarbiat Modares University, Tehran, Iran
    Med Mycol 51:657-63. 2013
    ..albicans Candida species looks to be increasing. The simple and reliable PCR-RFLP system used in the study has the potential to identify most clinically isolated yeasts...
  62. ncbi Analysis of the human cysteine-rich protein gene (CSRP), assignment to chromosome 1q24-1q32, and identification of an associated MspI polymorphism
    X Wang
    Department of Medicine, Howard Hughes Medical Institute, University of Pennsylvania, Philadelphia 19104
    Genomics 14:391-7. 1992
    ..A common MspI polymorphism is identified and mapped to intron 4 of the hCRP gene. The chromosomal localization and restriction site polymorphism should prove useful in future studies of the function of this gene...
  63. ncbi The organization and the complete nucleotide sequence of the human NADH-cytochrome b5 reductase gene
    S Tomatsu
    Department of Pediatrics, Gifu University, School of Medicine, Japan
    Gene 80:353-61. 1989
    ..Seventeen complete and twelve incomplete Alu family sequences were found in introns. An uncanonical polyadenylation signal was detected in the 3'-untranslated region of the gene as A-G-T-A-A-A instead of A-A-T-A-A-A...
  64. pmc RFLP analysis for APP 717 mutations associated with Alzheimer's disease
    S R Zeldenrust
    Richard L Roudebush Veterans Affairs Medical Center, Indianapolis, Indiana 46202
    J Med Genet 30:476-8. 1993
    ..In addition, DNA from 145 FAD subjects were tested for the three known APP 717 mutations...
  65. ncbi Cytosine methylation: quantitation by automated genomic sequencing and GENESCAN analysis
    C L Paul
    Kanematsu Laboratories, Royal Prince Alfred Hospital, Camperdown, Australia
    Biotechniques 21:126-33. 1996
    ..Using this approach we have found the unexpected result that multicopy plasmid DNA grown in a Dcm host is not always fully methylated as suggested by restriction enzyme data...
  66. pmc Identification of multiple HTF-island associated genes in the human major histocompatibility complex class III region
    C A Sargent
    MRC Immunochemistry Unit, University of Oxford, UK
    EMBO J 8:2305-12. 1989
    ..The location of so many new genes in this region raises the question as to whether they play any role in the observed HLA associations with an individual's susceptibility to develop autoimmune disease...
  67. ncbi Typing of MNSs blood group specific sequences in the human genome and characterization of a restriction fragment tightly linked to S-s- alleles
    C H Huang
    Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461
    Blood 77:381-6. 1991
    ..The site of cleavage resulting in this RFLP was localized to the second intron of the E gene, and cleavage could occur through differential methylation of its two alleles...
  68. ncbi Assessment of microbial community structure changes by amplified ribosomal DNA restriction analysis (ARDRA)
    F B Gich
    Laboratory of Microbiology, Institute of Aquatic Ecology, University of Girona, Spain
    Int Microbiol 3:103-6. 2000
    ..Other possible applications of ARDRA for detecting and monitoring changes in activated sludge systems are also discussed...
  69. pmc Absence of methylation of a CpG-rich region at the 5' end of the MIC2 gene on the active X, the inactive X, and the Y chromosome
    P J Goodfellow
    Human Molecular Genetics Laboratory, Imperial Cancer Research Fund, London, England
    Proc Natl Acad Sci U S A 85:5605-9. 1988
    ..These results provide further evidence that DNA methylation plays an important role in the phenomenon of X chromosome inactivation...
  70. ncbi Methylation differences in the murine P1450 and P3450 genes in wild-type and mutant hepatoma cell culture
    T C Peterson
    Biochem Pharmacol 35:2107-14. 1986
    ..It is of interest that the same nine bases are found in intron 2 about 80 bp upstream from the 5' end of exon 3 in the homologous P3450 gene...
  71. ncbi Missense mutations in norrie disease gene are not associated with advanced stages of retinopathy of prematurity in Kuwaiti arabs
    M Z Haider
    Pediatrics Department, Faculty of Medicine, Kuwait University, Safat, Kuwait
    Biol Neonate 77:88-91. 2000
    ..We did not find an association between the presence or absence of missense mutations of the ND gene and the risk of severe ROP...
  72. ncbi Hunter disease in a girl caused by R468Q mutation in the iduronate-2-sulfatase gene and skewed inactivation of the X chromosome carrying the normal allele
    K Sukegawa
    Department of Pediatrics, Gifu University School of Medicine, Japan
    Hum Mutat 10:361-7. 1997
    ....
  73. ncbi Mutations in the gene encoding lamin A/C cause autosomal dominant Emery-Dreifuss muscular dystrophy
    G Bonne
    INSERM UR153, GH Pitié Salpétrière, Paris
    Nat Genet 21:285-8. 1999
    ..Together with mutations in EMD (refs 5,6), they underscore the potential importance of the nuclear envelope components in the pathogenesis of neuromuscular disorders...
  74. pmc Effect of cytosine methylation on the cleavage of oligonucleotide duplexes with restriction endonucleases HpaII and MspI
    J Ben-Hattar
    Freidrich Miescher Institut, Basel, Switzerland
    Nucleic Acids Res 16:4160. 1988
  75. ncbi Targeted gene engineering in Clostridium cellulolyticum H10 without methylation
    Gu Zhen Cui
    Shandong Provincial Key Laboratory of Energy Genetics, Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong, PR China
    J Microbiol Methods 89:201-8. 2012
    ..It will greatly facilitate the metabolic engineering of C. cellulolyticum aiming at faster cellulose degradation and higher biofuel production at the molecular level...
  76. ncbi Does cytochrome P450 1A1 MspI polymorphism increase acute lymphoblastic leukemia risk? Evidence from 2013 cases and 2903 controls
    Wenlei Zhuo
    Institute of Cancer, Xinqiao Hospital, Third Military Medical University, Chongqing, China
    Gene 510:14-21. 2012
    ..Future well-designed high quality investigations with large sample sizes are required to elucidate the gene polymorphism-ALL relationship and gene-environment interactions...
  77. ncbi CYP1A1 Ile462Val is a risk factor for ovarian cancer development
    Miaoling Huang
    Department of Obstetrics and Gynecology, Sun Yat Sen Memorial Hospital, Sun Yat Sen University, Guangzhou 510120, China
    Cytokine 58:73-8. 2012
    ....
  78. ncbi CYP1A1 MspI polymorphisms and lung cancer risk: an updated meta-analysis involving 20,209 subjects
    Ya Nan Ji
    Jiangsu Province Hospital of Traditional Chinese Medicine, 155 Hanzhong Road, Nanjing 210029, China
    Cytokine 59:324-34. 2012
    ..However, the associations vary in different ethnic populations, histological types of lung cancer and the gender of case and control populations...
  79. pmc CYP1A1 MspI polymorphism and acute myeloid leukemia risk: meta-analyses based on 5018 subjects
    Wenlei Zhuo
    Institute of Cancer, Xinqiao Hospital, Third Military Medical University, Chongqing, China
    J Exp Clin Cancer Res 31:62. 2012
    ..However, the results remain conflicting. The aim of the present study was to derive a more precise estimation of the relationship...
  80. ncbi Osteogenesis imperfecta and type-I collagen mutations. A lethal variant caused by a Gly910-->Ala substitution in the alpha 1 (I) chain
    M Valli
    Dipartimento di Biochimica, Universita di Pavia, Italy
    Eur J Biochem 211:415-9. 1993
    ..Restriction analysis, along with the biochemical screening of collagens, allowed us to perform prenatal diagnosis on cells from chorionic-villus sampling and to exclude the recurrence of the mutation in the sibling...
  81. ncbi Study on genetic coadaptability of wild quail populations in China
    Guobin Chang
    Animal Science and Technology College, Yangzhou University, Yangzhou 225009, China
    Sci China C Life Sci 49:172-81. 2006
    ....
  82. pmc A leucine-to-proline mutation in the insulin receptor in a family with insulin resistance
    M P Klinkhamer
    Department of Medical Biochemistry, Sylvius Laboratory, Leiden, The Netherlands
    EMBO J 8:2503-7. 1989
    ..The mutation for the first time characterizes a region in the insulin receptor which seems to be involved in transmitting the insulin binding signal to the tyrosine kinase domain...
  83. ncbi 1462V mutation in the human CYP1A1 gene: lack of correlation with either the Msp I 1.9 kb (M2) allele or CYP1A1 inducibility in a three-generation family of east Mediterranean descent
    P J Wedlund
    Laboratory of Molecular Carcinogenesis, National Cancer Institute, Bethesda, MD 20892
    Pharmacogenetics 4:21-6. 1994
    ..9 kb allele or the CYP1A1 inducibility phenotype. We also found no absolute correlation between the Msp I 1.9 kb allele and the CYP1A1 inducibility phenotype...
  84. ncbi High-resolution analysis of a histone H1 binding site in a rat albumin gene
    J S Sevall
    Helicon Foundation, San Diego, California 92109
    Biochemistry 27:5038-44. 1988
    ..The sequences between the protected DNA regions are highly enriched in adenosine-thymidine bases (79.3 and 86 mol % adenosine-thymidine, respectively). The functional significance is not understood...
  85. ncbi Methylation analysis by genomic sequencing of 5' region of mouse Pgk-1 gene and a cautionary note concerning the method
    S Tommasi
    Biology Department, Beckman Research Institute of the City of Hope, Duarte, California 91010
    Somat Cell Mol Genet 19:529-41. 1993
    ..A DNA concentration-dependent band-suppression artifact can incorrectly suggest methylation of both CpG and nonCpG dinucleotides...
  86. ncbi Linkage relationships of the protein kinase C gamma gene which exclude it as a candidate for myotonic dystrophy
    K J Johnson
    Department of Biochemistry and Molecular Genetics, St Mary s Hospital Medical School, University of London, UK
    Cytogenet Cell Genet 48:13-5. 1988
    ..Linkage relationships between PKCG and other loci on chromosome 19 are presented which exclude PKCG from the proximal region of chromosome 19 and which are consistent with the localization being at 19q13.2----qter...
  87. ncbi [Plasma activated coagulation factor VII and Msp I polymorphism in elderly patients with coronary heart disease]
    Qing hua Lu
    Department of Cardiology, The Second Hospital, Shandong University, Jinan, Shandong, P R China
    Zhonghua Yi Xue Yi Chuan Xue Za Zhi 22:691-3. 2005
    ..To investigate the association of activated coagulation factor VII(F7a) and its gene Msp I polymorphism with coronary heart disease in elderly patients...
  88. ncbi Analysis of polymorphism of 18S rRNA gene in Wuchereria bancrofti microfilariae
    Yashodhar Bhandari
    Department of Biochemistry and J B Tropical Disease Research Centre, Mahatma Gandhi Institute of Medical Sciences, Sevagram, India
    Microbiol Immunol 49:909-14. 2005
    ..The phylogenetic analysis of the sequences of W. bancrofti mf isolates from different endemic zones has shown branching with the earlier reported sequences of W. bancrofti and its close relative Brugia malayi...
  89. pmc Coincident start sites for divergent transcripts at a randomly selected CpG-rich island of mouse
    P Lavia
    MRC Mammalian Genome Unit, Edinburgh, Scotland, UK
    EMBO J 6:2773-9. 1987
    ..The results support the view that HTF islands often mark genes, and they suggest that bidirectional transcription may be a common feature of island promoters...
  90. ncbi Maternal inhibition of hepatitis B surface antigen gene expression in transgenic mice correlates with de novo methylation
    M Hadchouel
    Recombinaison et Expression Génétique, INSERM U163, CNRS UA 271, Paris, France
    Nature 329:454-6. 1987
    ....
  91. ncbi Multiple restriction fragment length polymorphisms associated with the Vc determinant of the MN blood group-related chimpanzee V-A-B-D system
    A Rearden
    Department of Pathology, University of California, San Diego, La Jolla 92093
    Biochem Genet 28:223-31. 1990
    ..The RFLPs were chimpanzee specific and were not found in man, gorilla, orangutan, or gibbon. Multiple RFLPs distinguishing primate species are rare and may be useful markers for molecular evolution...
  92. ncbi Evaluation of the LTQ-Orbitrap mass spectrometer for the analysis of polymerase chain reaction products
    Hélène Manduzio
    CEA, iBiTec S, Service de Pharmacologie et d immunoanalyse, 91191 Gif sur Yvette, France
    Rapid Commun Mass Spectrom 24:3501-9. 2010
    ..For example, a single (T ↔ A) switch (9 Da mass difference) was successfully identified in a 114-bp PCR product...
  93. pmc DNA methylation profiling using HpaII tiny fragment enrichment by ligation-mediated PCR (HELP)
    Masako Suzuki
    Center for Epigenomics and Division of Computational Genetics, Department of Genetics, Albert Einstein College of Medicine, 1301 Morris Park Avenue, Bronx, NY 10461, USA
    Methods 52:218-22. 2010
    ..Here we describe the assay, its relative strengths and weaknesses, and the transition of the assay from a microarray to massively-parallel sequencing-based foundation...
  94. ncbi Identification of Candida species using PCR-RFLP in cancer patients in Iran
    T Shokohi
    Department of Medical Mycology and Parasitology, Sari Medical School, Mazandaran University of Medical Sciences, Sari, Iran
    Indian J Med Microbiol 28:147-51. 2010
    ..have been increasing. Traditional methods that are used to identify clinical isolates of Candida species are time-consuming and not appropriate for rapid, accurate and reliable identification...
  95. pmc MspI RFLP for microtubule associated protein-2 (MAP2)
    M J Alberts
    Joseph and Kathleen Bryan Alzheimer s Disease Research Center, Department of Medicine, Duke University Medical Center, Durham 27710
    Nucleic Acids Res 19:960. 1991
  96. ncbi Isoschizomers and amplified fragment length polymorphism for the detection of specific cytosine methylation changes
    Leonor Ruiz-García
    Departamento de Biotecnología y Protección de Cultivos, Instituto Murciano de Investigacion y Desarrollo Agrario y Alimentario, Murcia, Spain
    Methods Mol Biol 631:63-74. 2010
    ..This chapter describes a detailed protocol of this technique and discusses modifications that can be applied to adjust the technology to different species of interest...
  97. ncbi Assessing the DNA methylation status of single cells with the comet assay
    Johannes F Wentzel
    Division for Biochemistry, School of Physical and Chemical Sciences, North West University, Potchefstroom 2520, South Africa
    Anal Biochem 400:190-4. 2010
    ..We were able to show variations in DNA methylation after treatment of cultured cells with 5-azacytidine and succinylacetone, an accumulating metabolite in human tyrosinemia type I...
  98. pmc An MspI polymorphism in the human acid sphingomyelinase gene (SMPD1)
    E H Schuchman
    Division of Medical and Molecular Genetics, Mount Sinai School of Medicine, New York, NY 10029
    Nucleic Acids Res 19:3160. 1991
  99. ncbi Acquired skewing of Lyonization remains stable for a prolonged period in healthy blood donors
    J P van Dijk
    Central Hematology Laboratory, University Medical Center Nijmegen, Nijmegen, The Netherlands
    Leukemia 16:362-7. 2002
    ..We conclude that acquired skewing arises gradually in life without fluctuations in XCIP and that analysis at multiple time points cannot distinguish monoclonal hematopoiesis from normal, skewed hematopoiesis...
  100. ncbi Detection of the Hb Quong Sze mutation in a Chinese family by selective amplification of the alpha 2-globin gene and restriction map analysis with Msp I
    S Liang
    Guangxi Medical College, Nanning, P R China
    Hemoglobin 15:535-40. 1991
    ..R. China. Our data and those described in an earlier publication (1) indicate that the Hb Quong Sze carriers originate from the same province of the People's Republic of China, namely Guangxi...
  101. ncbi Isolation and characterization of the human apolipoprotein A-II gene. Electron microscopic analysis of RNA:DNA hybrids, nucleotide sequence, identification of a polymorphic MspI site, and general structural organization of apolipoprotein genes
    Y K Tsao
    J Biol Chem 260:15222-31. 1985
    ....

Research Grants4

  1. PROTEIN ARGININE METHYLATION--STRUCTURES AND FUNCTIONS
    Xiaodong Cheng; Fiscal Year: 2004
    ..The potential catalytic and sequence recognition regions of PRMT will be confirmed by mutational analysis. ..
  2. AUA/SBUR Res. Conf.-"Inflammation in Prostate Diseases"
    William Nelson; Fiscal Year: 2005
    ..Support for this meeting will encourage the future development of urology research by providing mentoring for new investigators as well as education on this emerging research area. ..
  3. MBD2 as a Target for Cancer Prevention and Treatment
    William Nelson; Fiscal Year: 2007
    ..abstract_text> ..
  4. 2008 FASEB Summer Research Conference on Biological Methylation: from DNA to Hist
    Xiaodong Cheng; Fiscal Year: 2008
    ..In addition, three afternoon mini-symposia are devoted to young investigators. [unreadable] [unreadable] [unreadable] [unreadable]..