nucleic acids

Summary

Summary: High molecular weight polymers containing a mixture of purine and pyrimidine nucleotides chained together by ribose or deoxyribose linkages.

Top Publications

  1. pmc MolProbity: all-atom contacts and structure validation for proteins and nucleic acids
    Ian W Davis
    Department of Biochemistry, Duke University, Durham, NC, USA
    Nucleic Acids Res 35:W375-83. 2007
  2. ncbi Development and current status of the CHARMM force field for nucleic acids
    A D MacKerell
    Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, 20 N Pine Street, Baltimore, MD 21201, USA
    Biopolymers 56:257-65. 2000
  3. ncbi Plasmacytoid dendritic cells: sensing nucleic acids in viral infection and autoimmune diseases
    Michel Gilliet
    Department of Immunology and Center of Cancer Immunology Research, The University of Texas M D Anderson Cancer Center, Houston, Texas 77030, USA
    Nat Rev Immunol 8:594-606. 2008
  4. pmc Human CD14dim monocytes patrol and sense nucleic acids and viruses via TLR7 and TLR8 receptors
    Jerome Cros
    U838 INSERM, Universite Paris Descartes, Paris, France
    Immunity 33:375-86. 2010
  5. pmc Isolation of phosphatidylethanolamine as a solitary cofactor for prion formation in the absence of nucleic acids
    Nathan R Deleault
    Department of Biochemistry, Dartmouth Medical School, Hanover, NH 03755, USA
    Proc Natl Acad Sci U S A 109:8546-51. 2012
  6. pmc MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes
    Ian W Davis
    Department of Biochemistry, Duke University, Durham, NC 27710 3711, USA
    Nucleic Acids Res 32:W615-9. 2004
  7. ncbi The structures of quadruplex nucleic acids and their drug complexes
    Stephen Neidle
    Cancer Research UK Biomolecular Structure Group, The School of Pharmacy, University of London, 29 39 Brunswick Square, London WC1N 1AX, UK
    Curr Opin Struct Biol 19:239-50. 2009
  8. pmc Contamination of clinical specimens with MLV-encoding nucleic acids: implications for XMRV and other candidate human retroviruses
    Robert A Smith
    Department of Pathology, University of Washington, Seattle WA, USA
    Retrovirology 7:112. 2010
  9. pmc Chemical vectors for gene delivery: a current review on polymers, peptides and lipids containing histidine or imidazole as nucleic acids carriers
    Patrick Midoux
    Centre de Biophysique Moléculaire CNRS UPR 4301 affiliated to the University of Orléans and Inserm, rue Charles Sadron, F 45071 Orleans cedex 2, France
    Br J Pharmacol 157:166-78. 2009
  10. ncbi Nucleic acids within urinary exosomes/microvesicles are potential biomarkers for renal disease
    Kevin C Miranda
    Division of Nephrology, Center for Systems Biology, Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts 02114, USA
    Kidney Int 78:191-9. 2010

Detail Information

Publications354 found, 100 shown here

  1. pmc MolProbity: all-atom contacts and structure validation for proteins and nucleic acids
    Ian W Davis
    Department of Biochemistry, Duke University, Durham, NC, USA
    Nucleic Acids Res 35:W375-83. 2007
    MolProbity is a general-purpose web server offering quality validation for 3D structures of proteins, nucleic acids and complexes...
  2. ncbi Development and current status of the CHARMM force field for nucleic acids
    A D MacKerell
    Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, 20 N Pine Street, Baltimore, MD 21201, USA
    Biopolymers 56:257-65. 2000
    The CHARMM27 all-atom force field for nucleic acids represents a highly optimized model for investigations of nucleic acids via empirical force field calculations...
  3. ncbi Plasmacytoid dendritic cells: sensing nucleic acids in viral infection and autoimmune diseases
    Michel Gilliet
    Department of Immunology and Center of Cancer Immunology Research, The University of Texas M D Anderson Cancer Center, Houston, Texas 77030, USA
    Nat Rev Immunol 8:594-606. 2008
    ..This function of pDCs is linked to their expression of Toll-like receptor 7 (TLR7) and TLR9, which sense viral nucleic acids within the early endosomes...
  4. pmc Human CD14dim monocytes patrol and sense nucleic acids and viruses via TLR7 and TLR8 receptors
    Jerome Cros
    U838 INSERM, Universite Paris Descartes, Paris, France
    Immunity 33:375-86. 2010
    ..they selectively produced TNF-α, IL-1β, and CCL3 in response to viruses and immune complexes containing nucleic acids, via a proinflammatory TLR7-TLR 8-MyD88-MEK pathway...
  5. pmc Isolation of phosphatidylethanolamine as a solitary cofactor for prion formation in the absence of nucleic acids
    Nathan R Deleault
    Department of Biochemistry, Dartmouth Medical School, Hanover, NH 03755, USA
    Proc Natl Acad Sci U S A 109:8546-51. 2012
    ..Recent reconstitution studies indicate that nucleic acids are not required for the propagation of mouse prions in vitro, suggesting the existence of an alternative ..
  6. pmc MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes
    Ian W Davis
    Department of Biochemistry, Duke University, Durham, NC 27710 3711, USA
    Nucleic Acids Res 32:W615-9. 2004
    ..a general-purpose web service offering quality validation for three-dimensional (3D) structures of proteins, nucleic acids and complexes...
  7. ncbi The structures of quadruplex nucleic acids and their drug complexes
    Stephen Neidle
    Cancer Research UK Biomolecular Structure Group, The School of Pharmacy, University of London, 29 39 Brunswick Square, London WC1N 1AX, UK
    Curr Opin Struct Biol 19:239-50. 2009
    Quadruplex nucleic acids are four-stranded structures formed from short tracts of G-rich sequence associating together...
  8. pmc Contamination of clinical specimens with MLV-encoding nucleic acids: implications for XMRV and other candidate human retroviruses
    Robert A Smith
    Department of Pathology, University of Washington, Seattle WA, USA
    Retrovirology 7:112. 2010
    ..These findings raise important questions regarding the provenance of XMRV and its potential connection to human disease...
  9. pmc Chemical vectors for gene delivery: a current review on polymers, peptides and lipids containing histidine or imidazole as nucleic acids carriers
    Patrick Midoux
    Centre de Biophysique Moléculaire CNRS UPR 4301 affiliated to the University of Orléans and Inserm, rue Charles Sadron, F 45071 Orleans cedex 2, France
    Br J Pharmacol 157:166-78. 2009
    ..and DNA/cationic polymer/cationic lipid (lipopolyplexes) electrostatic complexes are proposed as non-viral nucleic acids delivery systems...
  10. ncbi Nucleic acids within urinary exosomes/microvesicles are potential biomarkers for renal disease
    Kevin C Miranda
    Division of Nephrology, Center for Systems Biology, Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts 02114, USA
    Kidney Int 78:191-9. 2010
    ..We sought to identify whether these microvesicles contain nucleic acids. We isolated microvesicles from human urine in the same density range as that previously described for urinary ..
  11. ncbi Peptide vectors for the nonviral delivery of nucleic acids
    Jan Hoyer
    Translational Centre for Regenerative Medicine, University of Leipzig, Germany
    Acc Chem Res 45:1048-56. 2012
    ..However, the therapeutic applications of nucleic acids extend beyond the delivery of double-stranded DNA and subsequent expression of deficient gene products in ..
  12. pmc Architecture and nucleic acids recognition mechanism of the THO complex, an mRNP assembly factor
    Alvaro Peña
    Department of Structure of Macromolecules, Centro Nacional de Biotecnologia CNB CSIC, Madrid, Spain
    EMBO J 31:1605-16. 2012
    ..Furthermore, we show that THO directly interacts with nucleic acids through the unfolded C-terminal region of Tho2, whose removal reduces THO recruitment to active chromatin ..
  13. pmc Synthetic genetic polymers capable of heredity and evolution
    Vitor B Pinheiro
    Medical Research Council Laboratory of Molecular Biology, Hills Road, Cambridge CB2 0QH, UK
    Science 336:341-4. 2012
    ..from six alternative genetic polymers based on simple nucleic acid architectures not found in nature [xeno-nucleic acids (XNAs)]...
  14. ncbi Four-stranded nucleic acids: structure, function and targeting of G-quadruplexes
    Julian Leon Huppert
    Cavendish Laboratory, University of Cambridge, JJ Thomson Ave, Cambridge, UKCB3 0HE
    Chem Soc Rev 37:1375-84. 2008
    There are many structures that can be adopted by nucleic acids other than the famous Watson-Crick duplex form...
  15. pmc Point-of-care nucleic acid testing for infectious diseases
    Angelika Niemz
    Keck Graduate Institute of Applied Life Sciences, 535 Watson Drive, Claremont, CA 91711, USA
    Trends Biotechnol 29:240-50. 2011
    ..It briefly discusses selected applications related to the diagnosis and management of tuberculosis, HIV, and perinatal and nosocomial infections...
  16. ncbi Specific localisation of human cytomegalovirus nucleic acids and proteins in human colorectal cancer
    Lualhati Harkins
    Pathology Service, Birmingham Veterans Affairs Hospital, Birmingham, AL, USA
    Lancet 360:1557-63. 2002
    ..We aimed to assess whether gene products of human cytomegalovirus could be detected in colorectal cancers...
  17. ncbi Therapeutic applications of nucleic acids and their analogues in Toll-like receptor signaling
    Vijayakumar Gosu
    Department of Molecular Science and Technology, Ajou University, Suwon 443 749, Korea
    Molecules 17:13503-29. 2012
    ..Specifically intracellular TLRs such as TLR3, TLR7, TLR8 and TLR9 recognize nucleic acids such as double-stranded RNA, single-stranded RNA and CpG DNA respectively derived from microbial components...
  18. ncbi Oxidative damage to nucleic acids photosensitized by titanium dioxide
    W G Wamer
    Center for Food Safety and Applied Nutrition, U S Food and Drug Administration, Washington, DC 20204, USA
    Free Radic Biol Med 23:851-8. 1997
    ..However, no oxidative damage was detectable in cellular DNA. These results suggest that nucleic acids are a potential target for photooxidative damage sensitized by TiO2, and support the view that TiO2 ..
  19. ncbi Screening for circulating nucleic acids and caspase activity in the peripheral blood as potential diagnostic tools in lung cancer
    Carina Roth
    Institute of Tumor Biology, University Medical Center Hamburg Eppendorf, Germany
    Mol Oncol 5:281-91. 2011
    The focus of the current investigational study was to examine whether circulating nucleic acids (i.e., DNA and microRNAs) have the potential to become suitable blood-based markers for diagnosis and progression of lung cancer...
  20. pmc TLR recognition of self nucleic acids hampers glucocorticoid activity in lupus
    Cristiana Guiducci
    Dynavax Technologies Corporation, 2929 Seventh Street, Suite 100, Berkeley, California 94710, USA
    Nature 465:937-41. 2010
    ..Recognition of self nucleic acids by toll-like receptors TLR7 and TLR9 on B cells and plasmacytoid dendritic cells (PDCs) is an important step ..
  21. pmc Autoimmune skin inflammation is dependent on plasmacytoid dendritic cell activation by nucleic acids via TLR7 and TLR9
    Cristiana Guiducci
    Dynavax Technologies Corporation, Berkeley, CA 94710, USA
    J Exp Med 207:2931-42. 2010
    ..These data suggest that inhibitors of TLR7 and TLR9 signaling have potential therapeutic application for the treatment of interface dermatitis...
  22. ncbi Recognition of nucleic acids by pattern-recognition receptors and its relevance in autoimmunity
    Takumi Kawasaki
    Laboratory of Host Defense, WPI Immunology Frontier Research Center, Department of Host Defense, Research Institute for Microbial Diseases, Osaka University, Osaka, Japan
    Immunol Rev 243:61-73. 2011
    ..b>Nucleic acids, which are critical components for inheriting genetic information in all species including pathogens, are key ..
  23. ncbi Vitamin B12-derivatives-enzyme cofactors and ligands of proteins and nucleic acids
    Karl Gruber
    Institute of Molecular Biosciences, University of Graz, Humboldtstr 50 3, Graz, A 8010, Austria
    Chem Soc Rev 40:4346-63. 2011
    ....
  24. ncbi Relevance of circulating tumor cells, extracellular nucleic acids, and exosomes in breast cancer
    Anne M Friel
    School of Pharmacy and Pharmaceutical Sciences and Molecular Therapeutics for Cancer Ireland, Trinity College Dublin, Dublin 2, Ireland
    Breast Cancer Res Treat 123:613-25. 2010
    ..Circulating tumor cells and extracellular nucleic acids have been detected within blood, plasma, and sera of cancer patients...
  25. pmc Predicting secondary structural folding kinetics for nucleic acids
    Peinan Zhao
    Department of Physics, Wuhan University, Wuhan, China
    Biophys J 98:1617-25. 2010
    ..The approach presented here may provide a robust first step for further systematic development of a predictive theory for the folding kinetics for large RNAs...
  26. ncbi Microparticle-associated nucleic acids mediate trait dominance in cancer
    Ritu Jaiswal
    Sydney Medical School and Bosch Institute, University of Sydney, Sydney, Australia
    FASEB J 26:420-9. 2012
    ..We show that MDR MPs incorporate nucleic acids; MPs change recipient cells' transcriptional environment to reflect donor MDR phenotype, and distinct pathways ..
  27. ncbi Tissue handling and specimen preparation in surgical pathology: issues concerning the recovery of nucleic acids from formalin-fixed, paraffin-embedded tissue
    Stephen M Hewitt
    Tissue Array Research Program, Laboratory of Pathology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892 4605, USA
    Arch Pathol Lab Med 132:1929-35. 2008
    ..Limiting the utility of expression profiling is the isolation of quality nucleic acids from formalin-fixed, paraffin-embedded tissue...
  28. pmc Metallo-beta-lactamase fold within nucleic acids processing enzymes: the beta-CASP family
    Isabelle Callebaut
    Systèmes moléculaires et Biologie structurale, LMCP, CNRS UMR 7590, Universités Paris 6 et Paris 7, case 115, 4 place Jussieu, F 75252 Paris Cedex 05, France
    Nucleic Acids Res 30:3592-601. 2002
    ....
  29. ncbi Chitosans for delivery of nucleic acids
    Michael D Buschmann
    Dept Chemical Engineering and Inst Biomedical Engineering, Ecole Polytechnique, Montreal, QC, Canada Electronic address
    Adv Drug Deliv Rev 65:1234-70. 2013
    ..In each, we present the obstacles to efficient transfection and the strategies adopted over time to surmount these impediments. ..
  30. pmc Biologically relevant oxidants and terminology, classification and nomenclature of oxidatively generated damage to nucleobases and 2-deoxyribose in nucleic acids
    Jean Cadet
    Direction des Sciences de Matière, Institut Nanosciences et Cryogenie, CEA Grenoble, Grenoble Cedex 9, France
    Free Radic Res 46:367-81. 2012
    ..aimed at delineating the mechanisms of formation and cellular processing of oxidatively generated damage to nucleic acids. Perhaps as a consequence of this breadth of research expertise, there are nomenclature problems for several ..
  31. ncbi DNA polymerase-mediated DNA synthesis on a TNA template
    John C Chaput
    Howard Hughes Medical Institute, and Department of Molecular Biology, Massachusetts General Hospital, Boston, MA 02114, USA
    J Am Chem Soc 125:856-7. 2003
    ..We report that despite having a repeating unit that is one atom shorter than that of DNA, several polymerases showed surprisingly good ability to copy limited stretches of TNA...
  32. ncbi Two sides of the coin: affinity and specificity of nucleic acid interactions
    Vadim V Demidov
    Center for Advanced Biotechnology, Boston University, Boston, MA 02215, USA
    Trends Biochem Sci 29:62-71. 2004
    ..recent progress in understanding the molecular mechanisms of nucleic acid interactions and the development of new high-affinity plus high-specificity oligonucleotides and their mimics, with particular emphasis on peptide nucleic acids.
  33. ncbi The polyethyleneglycol dilemma: advantage and disadvantage of PEGylation of liposomes for systemic genes and nucleic acids delivery to tumors
    Hiroto Hatakeyama
    Laboratory of Innovative Nanomedicine, Faculty of Pharmaceutical Sciences, Hokkaido University, Sapporo, Hokkaido, Japan
    Biol Pharm Bull 36:892-9. 2013
    ..Then, endosomal fusogenic peptides are discussed. Finally, pH-sensitive liposomes using pH-sensitive lipids are described...
  34. ncbi Crystal growth of proteins, nucleic acids, and viruses in gels
    Bernard Lorber
    Architecture et Reactivite de l ARN, Universite de Strasbourg, CNRS, IBMC, 15 rue Rene Descartes, 67084 Strasbourg, France
    Prog Biophys Mol Biol 101:13-25. 2009
    ..Methods and techniques implemented with proteins can also be applied to nucleic acids and nucleoprotein assemblies such as viruses.
  35. ncbi Thermodynamic and biological evaluation of a thrombin binding aptamer modified with several unlocked nucleic acid (UNA) monomers and a 2'-C-piperazino-UNA monomer
    Troels B Jensen
    Nucleic Acid Center, Department of Physics and Chemistry, University of Southern Denmark, Campusvej 55, 5230 Odense M, Denmark
    Bioorg Med Chem 19:4739-45. 2011
    ..Most of the studied variants bind thrombin, albeit with decreased affinity in reference to unmodified TBA. Thrombin time assay studies indicate three variants as being as potent as TBA in fibrin clotting inhibition...
  36. pmc Modeling nucleic acids
    Adelene Y L Sim
    Department of Applied Physics, Stanford University, Stanford, CA 94305, USA
    Curr Opin Struct Biol 22:273-8. 2012
    b>Nucleic acids are an important class of biological macromolecules that carry out a variety of cellular roles. For many functions, naturally occurring DNA and RNA molecules need to fold into precise three-dimensional structures...
  37. pmc Efficient and rapid template-directed nucleic acid copying using 2'-amino-2',3'-dideoxyribonucleoside-5'-phosphorimidazolide monomers
    Jason P Schrum
    Howard Hughes Medical Institute and Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, 185 Cambridge Street, Harvard Medical School, Boston, Massachusetts 02114, USA
    J Am Chem Soc 131:14560-70. 2009
    ....
  38. ncbi A library of IR bands of nucleic acids in solution
    Martina Banyay
    Department of Biochemistry and Biophysics, Arrhenius Laboratories, Stockholm University, S 106 91, Stockholm, Sweden
    Biophys Chem 104:477-88. 2003
    This review presents a compilation and discussion of infrared (IR) bands characteristic of nucleic acids in various conformations...
  39. ncbi Point detection of pathogens in oral samples
    D Malamud
    University of Pennsylvania School of Dental Medicine, 240 South 40th Street, Philadelphia, PA 19104 6030, USA
    Adv Dent Res 18:12-6. 2005
  40. ncbi Circulating nucleic acids and critical illness
    Timothy H Rainer
    Accident and Emergency Medicine Academic Unit, The Chinese University of Hong Kong, Prince of Wales Hospital, Shatin, New Territories, Hong Kong SAR
    Ann N Y Acad Sci 1075:271-7. 2006
    ..reviews some of the early work that has been performed to investigate the potential roles of circulating nucleic acids as prediction markers in acute illness and injury...
  41. ncbi A binary DNA probe for highly specific nucleic Acid recognition
    Dmitry M Kolpashchikov
    Division of Experimental Therapeutics, Department of Medicine, Columbia University, Box 84, 630W 168th Street, New York, New York 10032, USA
    J Am Chem Soc 128:10625-8. 2006
    ..5% of the analyte in excess amount of a single base substituted oligodeoxyribonucleotide and distinguishes single nucleotide substitutions at any position of a 20-mer oligonucleotide at room temperature...
  42. pmc Intracellular nucleic acid sensors and autoimmunity
    Argyrios N Theofilopoulos
    Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, California 92137, USA
    J Interferon Cytokine Res 31:867-86. 2011
    ..if the molecular signatures recognized are shared by both foreign and self-molecules, as is the case of nucleic acids, then the responses initiated by these sensors may have deleterious consequences...
  43. ncbi Preparation and evaluation of packed capillary columns for the separation of nucleic acids by ion-pair reversed-phase high-performance liquid chromatography
    H Oberacher
    Institute of Analytical Chemistry and Radiochemistry, Leopold-Franzens University, Innsbruck. Austria
    J Chromatogr A 893:23-35. 2000
    ....
  44. ncbi Electrochemical simulation of oxidation processes involving nucleic acids monitored with electrospray ionization-mass spectrometry
    Florian Pitterl
    Institute of Legal Medicine, Innsbruck Medical University, Muellerstrasse 44, 6020 Innsbruck, Austria
    Anal Bioanal Chem 397:1203-15. 2010
    Oxidation is commonly involved in the alteration of nucleic acids giving rise to diverse effects including mutation, cell death, malignancy, and aging...
  45. pmc Oxidative damage to nucleic acids in severe emphysema
    Gaetan Deslee
    Washington University School of Medicine, Division of Pulmonary and Critical Care Medicine, 660 South Euclid Avenue, St Louis, MO 63110, USA
    Chest 135:965-74. 2009
    Oxidative stress is a key element in the pathogenesis of emphysema, but oxidation of nucleic acids has been largely overlooked. The aim of this study was to investigate oxidative damage to nucleic acids in severe emphysematous lungs.
  46. pmc Effect of stalling after mismatches on the error catastrophe in nonenzymatic nucleic acid replication
    Sudha Rajamani
    FAS Center for Systems Biology, Harvard University, Cambridge, Massachusetts 02138, USA
    J Am Chem Soc 132:5880-5. 2010
    ..Our study suggests that the emergence of functional sequences during the origin of life would be possible even in the face of the high intrinsic error rates of chemical replication...
  47. pmc 3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures
    Xiang Jun Lu
    Department of Chemistry and Chemical Biology and BioMaPS Institute for Quantitative Biology, Rutgers The State University of New Jersey, Piscataway, New Jersey 08854 8087, USA
    Nat Protoc 3:1213-27. 2008
    ..The commands run in seconds even for large structures. The software and related information are available at http://3dna.rutgers.edu/...
  48. pmc Multicentre validation study of nucleic acids extraction from FFPE tissues
    Serena Bonin
    ACADEM Department University of Trieste and ICGEB, University of Trieste, Cattinara Hospital, 34149 Trieste, Italy
    Virchows Arch 457:309-17. 2010
    ..Thus, there is a need for standardized procedures in molecular pathology, starting from the extraction of nucleic acids. To evaluate the current methods for extracting nucleic acids from FFPE tissues, 13 European laboratories, ..
  49. pmc Probing structural heterogeneities and fluctuations of nucleic acids and denatured proteins
    Ted A Laurence
    Physical Biosciences Institute, Lawrence Livermore National Laboratory, Livermore, CA 94550, USA
    Proc Natl Acad Sci U S A 102:17348-53. 2005
    ..We propose that the larger fluctuations may indicate transient residual structure in the unfolded state...
  50. pmc Dimer-dimer stacking interactions are important for nucleic acid binding by the archaeal chromatin protein Alba
    Clare Jelinska
    Centre for Biomolecular Sciences, University of St Andrews, Fife KY169ST, U K
    Biochem J 427:49-55. 2010
    ..Site-directed spin labelling and pulsed ESR are used to confirm that an end-to-end, dimer-dimer interaction forms in the presence of dsDNA...
  51. pmc Nonviral approaches for neuronal delivery of nucleic acids
    Jamie M Bergen
    Bioengineering, University of Washington, Seattle, WA 98195, USA
    Pharm Res 25:983-98. 2008
    The delivery of therapeutic nucleic acids to neurons has the potential to treat neurological disease and spinal cord injury...
  52. ncbi Enzymatic incorporation of LNA nucleotides into DNA strands
    Rakesh N Veedu
    Nucleic Acid Center, Department of Physics and Chemistry, University of Southern Denmark, Campusvej 55, 5230 Odense M, Denmark
    Chembiochem 8:490-2. 2007
  53. pmc Circulating nucleic acids in plasma or serum (CNAPS) as prognostic and predictive markers in patients with solid neoplasias
    Georg Goebel
    Department of Medical Statistics, Informatics and Health Economics, Innsbruck Medical University, A 6020 Innsbruck, Austria
    Dis Markers 21:105-20. 2005
    ..Approximately a decade ago tumor-derived circulating nucleic acids in the plasma or serum (CNAPS) of cancer patients were introduced as a noninvasive tool for cancer detection...
  54. ncbi Inorganic nanoparticles as carriers of nucleic acids into cells
    Viktoriya Sokolova
    Institut fur Anorganische Chemie, Universitat Duisburg Essen, Universitätsstrasse 5 7, 45117 Essen, Germany
    Angew Chem Int Ed Engl 47:1382-95. 2008
    The transfer of nucleic acids (DNA or RNA) into living cells, that is, transfection, is a major technique in current biochemistry and molecular biology...
  55. ncbi Liposomes and virosomes as delivery systems for antigens, nucleic acids and drugs
    Diana Felnerova
    Berna Biotech Ltd, Rehhagstrasse 79, CH 3018, Berne, Switzerland
    Curr Opin Biotechnol 15:518-29. 2004
    ....
  56. ncbi Isolation and characterization of low nucleic acid (LNA)-content bacteria
    Yingying Wang
    Department of Environmental Microbiology, Eawag, Swiss Federal Institute of Aquatic Science and Technology, Dubendorf, Switzerland
    ISME J 3:889-902. 2009
    ..Their isolation and cultivation allow further detailed investigation of this group of organisms under defined laboratory conditions...
  57. ncbi Nucleic acids electrotransfer-based gene therapy (electrogenetherapy): past, current, and future
    L M Mir
    Centre National de la Recherche Scientifique, UMR 8121, Institut Gustave Roussy, 39 Rue C Desmoulins, Villejuif Cedex, France
    Mol Biotechnol 43:167-76. 2009
    ..This knowledge has allowed developing new nucleic acids electrotransfer conditions using combinations of permeabilizing pulses of high voltage and short duration, and ..
  58. pmc Effect of fixatives and tissue processing on the content and integrity of nucleic acids
    Mythily Srinivasan
    Department of Pathology, Tzagournis Medical Research Facility, The Ohio State University, 420 West 12th Avenue, Columbus, OH 43210, USA
    Am J Pathol 161:1961-71. 2002
    ..In addition, the parameters of procurement and fixation that affect the quality of the tissues at the molecular level are discussed...
  59. ncbi Electrically-assisted nucleic acids delivery to tissues in vivo: where do we stand?
    M Cemazar
    IPBS CNRS, UMR 5089, 205, route de Narbonne, 31077 Toulouse Cedex, France
    Curr Pharm Des 12:3817-25. 2006
    ..In the long run, this review should encourage other scientists to consider electrically assisted gene delivery for gene therapy as it matures...
  60. pmc Does the high nucleic acid content of individual bacterial cells allow us to discriminate between active cells and inactive cells in aquatic systems?
    P Lebaron
    Observatoire Oceanologique, Universite Pierre et Marie Curie, UMR 7621 7628 CNRS INSU, 66651 Banyuls sur Mer Cedex, France
    Appl Environ Microbiol 67:1775-82. 2001
    ....
  61. ncbi Characterization of synthetic nucleic acids by electrospray ionization quadrupole time-of-flight mass spectrometry
    Herbert Oberacher
    Institute of Legal Medicine, Innsbruck Medical University, Muellerstrasse 44, 6020 Innsbruck, Austria
    J Mass Spectrom 40:932-45. 2005
    ..quadrupole-quadrupole-time-of-flight mass spectrometry (ESI-QqTOF-MS) for the characterization of synthetic nucleic acids was evaluated...
  62. ncbi Quantum dots as donors in fluorescence resonance energy transfer for the bioanalysis of nucleic acids, proteins, and other biological molecules
    W Russ Algar
    Chemical Sensors Group, Department of Chemical and Physical Sciences, University of Toronto Mississauga, 3359 Mississauga Rd North, Mississauga, ON, L5L 1C6, Canada
    Anal Bioanal Chem 391:1609-18. 2008
    ..Researchers have used QDs as energy donors in FRET schemes for the analysis of nucleic acids, proteins, proteases, haptens, and other small molecules. This paper reviews these applications of QDs...
  63. ncbi Cell-free nucleic acids as potential markers for preeclampsia
    S Hahn
    Laboratory for Prenatal Medicine, Department of Biomedicine, University Hospital, Spitalstrasse 21, CH 4031 Basel, Switzerland
    Placenta 32:S17-20. 2011
    ..Circulating cell-free nucleic acids in plasma and serum are novel biomarkers with promising clinical applications in different medical fields, ..
  64. ncbi Innate immunity in systemic lupus erythematosus: sensing endogenous nucleic acids
    Elena Kontaki
    Rheumatology, Clinical Immunology and Allergy, Graduate Program Molecular Basis of Human Diseases, University of Crete, Greece
    J Autoimmun 35:206-11. 2010
    ..According to the current paradigm, nucleosomes containing nucleic acids (RNA and/or DNA) and other endogenous danger ligands that can bind to pathogen associated molecular pattern ..
  65. ncbi Role of the unstructured N-terminal domain of the hAPE1 (human apurinic/apyrimidinic endonuclease 1) in the modulation of its interaction with nucleic acids and NPM1 (nucleophosmin)
    Mattia Poletto
    Department of Medical and Biological Sciences, University of Udine, 33100 Udine, Italy
    Biochem J 452:545-57. 2013
    ..In the present study, we characterized the requirements for the interaction of hAPE1 with NPM1 and undamaged nucleic acids. We show that DNA/RNA secondary structure has an impact on hAPE1 binding in the absence of damage...
  66. pmc Evolution of functional nucleic acids in the presence of nonheritable backbone heterogeneity
    Simon G Trevino
    Howard Hughes Medical Institute, Center for Computational and Integrative Biology, and Department of Molecular Biology, Massachusetts General Hospital, Boston, MA 02144, USA
    Proc Natl Acad Sci U S A 108:13492-7. 2011
    ..this possibility in a simplified model system, by using a T7 RNA polymerase variant capable of transcribing nucleic acids that contain an approximately 11 mixture of deoxy- and ribonucleotides...
  67. ncbi Circulating nucleic acids in plasma/serum
    Jason C H Tsang
    Department of Chemical Pathology, The Chinese University of Hong Kong, Prince of Wales Hospital, Hong Kong, SAR
    Pathology 39:197-207. 2007
    Since the discovery of circulating nucleic acids in plasma in 1948, many diagnostic applications have emerged...
  68. ncbi Lipid nanoparticles as vehicles for macromolecules: nucleic acids and peptides
    Ana del Pozo-Rodríguez
    University of the Basque Country, Laboratory of Pharmacy and Pharmaceutical Technology, Faculty of Pharmacy, Paseo de la Universidad, 7 01006 Vitoria Gasteiz, Spain
    Recent Pat Drug Deliv Formul 5:214-26. 2011
    ..Moreover, in the case of nucleic acids strategies to improve transfection mediated by lipid nanoparticles (entrance to the cells, intracellular ..
  69. ncbi How cationic lipids transfer nucleic acids into cells and across cellular membranes: recent advances
    Zia ur Rehman
    University Medical Center Groningen, University of Groningen, Department of Cell Biology, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands
    J Control Release 166:46-56. 2013
    ..polymer-based nanodevices are considered appropriate alternatives for virus-based particles for delivery of nucleic acids, including genes and siRNA, into eukaryotic cells...
  70. pmc A rapid assay for affinity and kinetics of molecular interactions with nucleic acids
    Gregory P Donaldson
    Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD 20742, USA
    Nucleic Acids Res 40:e48. 2012
    ..Sequestration of biotinylated nucleic acids by streptavidin allowed nucleic acids to take the place of the protein as the immobile binding partner...
  71. pmc Development of a generic microfluidic device for simultaneous detection of antibodies and nucleic acids in oral fluids
    Zongyuan Chen
    Rheonix, Inc, Ithaca, NY 14850, USA
    Biomed Res Int 2013:543294. 2013
    ..The serological result is available in less than 30 min, and the confirmation by RNA amplification takes another 60 min. This approach combines a core serological portable diagnostic with a nucleic acid-based confirmatory test...
  72. ncbi Cell-penetrating peptides for the delivery of nucleic acids
    Taavi Lehto
    University of Tartu, Institute of Technology, Laboratory of Molecular Biotechnology, Tartu, Estonia
    Expert Opin Drug Deliv 9:823-36. 2012
    ..Recently, non-viral delivery of nucleic acids and their analogs has gained significant interest...
  73. ncbi NMR methodology for the study of nucleic acids
    L Zidek
    National Centre for Biomolecular Research, Masaryk University, Kotlarska 2, 611 37, Brno, Czech Republic
    Curr Opin Struct Biol 11:275-81. 2001
    During the past few years, NMR methodology for the study of nucleic acids has benefited from new developments that greatly improved state-of-the-art technology for the precise determination of three-dimensional structures...
  74. ncbi Prediction of interactiveness of proteins and nucleic acids based on feature selections
    Youlang Yuan
    Chemical Data mining Laboratory, Department of Chemistry, College of Sciences, Shanghai University, 99 Shang Da Road, Shanghai, 200444, People s Republic of China
    Mol Divers 14:627-33. 2010
    It is important to identify which proteins can interact with nucleic acids for the purpose of protein annotation, since interactions between nucleic acids and proteins involve in numerous cellular processes such as replication, ..
  75. pmc MELTING, a flexible platform to predict the melting temperatures of nucleic acids
    Marine Dumousseau
    EMBL EBI, Wellcome Trust Genome Campus, Hinxton, UK
    BMC Bioinformatics 13:101. 2012
    ..MELTING is a free open source software which computes the enthalpy, entropy and melting temperature of nucleic acids. MELTING 4...
  76. ncbi Fixation of brain tumor biopsy specimens with RCL2 results in well-preserved histomorphology, immunohistochemistry and nucleic acids
    Matthias Preusser
    Department of Medicine I, Medical University of Vienna, Vienna, Austria
    Brain Pathol 20:1010-20. 2010
    RCL2 is an alcohol-based fixative reported to preserve histomorphology and nucleic acids in non-CNS neoplasms...
  77. ncbi Analytical ancestry: "firsts" in fluorescent labeling of nucleosides, nucleotides, and nucleic acids
    Larry J Kricka
    Department of Pathology and Laboratory Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA 19104, USA
    Clin Chem 55:670-83. 2009
    The inherent fluorescent properties of nucleosides, nucleotides, and nucleic acids are limited, and thus the need has arisen for fluorescent labeling of these molecules for a variety of analytical applications.
  78. ncbi PubDNA Finder: a web database linking full-text articles to sequences of nucleic acids
    Miguel Garcia-Remesal
    Departamento de Inteligencia Artificial, Facultad de Informatica, Universidad Politecnica de Madrid, Campus de Montegacedo S N, Boadilla del Monte, Madrid, Spain
    Bioinformatics 26:2801-2. 2010
    ..Finder is an online repository that we have created to link PubMed Central manuscripts to the sequences of nucleic acids appearing in them...
  79. ncbi Microfluidic sample preparation: cell lysis and nucleic acid purification
    Jungkyu Kim
    Department of Bioengineering, University of Utah, Salt Lake City, UT 84112, USA
    Integr Biol (Camb) 1:574-86. 2009
    ..We classify the nucleic acid purification techniques according to the mechanism that links nucleic acids to substrates: silica-based surface affinity, electrostatic interaction, nanoporous membrane filtration, and ..
  80. ncbi Flow-cytometric total bacterial cell counts as a descriptive microbiological parameter for drinking water treatment processes
    Frederik Hammes
    Swiss Federal Institute of Aquatic Science and Technology EAWAG, P O Box 611, Uberlandstr 133, CH 8600 Dubendorf, Switzerland
    Water Res 42:269-77. 2008
    ..We have shown that total cell concentration measured with FCM is a rapid, easy, sensitive and importantly, a descriptive parameter of several widely applied drinking water treatment processes...
  81. pmc Analysis of human immunodeficiency virus type 1 matrix binding to membranes and nucleic acids
    Ayna Alfadhli
    Department of Microbiology, Vollum Institute, Oregon Health and Science University, Portland, Oregon 97201 3098, USA
    J Virol 83:12196-203. 2009
    ..MA also binds nucleic acids, although the significance of this association with regard to the viral life cycle is unclear...
  82. ncbi Bioresponsive polymers for the delivery of therapeutic nucleic acids
    Daniel Edinger
    Pharmaceutical Biotechnology, LMU University, Butenandtstrasse 5 13, Munich, Germany
    Wiley Interdiscip Rev Nanomed Nanobiotechnol 3:33-46. 2011
    Polymers present an interesting option for the delivery of genes and other therapeutic nucleic acids. In the delivery process, the polymeric carriers face many different delivery tasks and different physiological microenvironments...
  83. ncbi High detection rates of nucleic acids of a wide range of respiratory viruses in the nasopharynx and the middle ear of children with a history of recurrent acute otitis media
    Selma P Wiertsema
    School of Paediatrics and Child Health, University of Western Australia, Perth, Western Australia, Australia
    J Med Virol 83:2008-17. 2011
    ..In this study molecular methods were used to determine the presence of nucleic acids of human rhinoviruses (HRV; types A, B, and C), respiratory syncytial viruses (RSV; types A and B), bocavirus (..
  84. ncbi A sensitive two-color electrophoretic mobility shift assay for detecting both nucleic acids and protein in gels
    Debra Jing
    Proteomics Section, Molecular Probes Inc, 29851 Willow Creek Road, Eugene, OR 97402, USA
    Proteomics 3:1172-80. 2003
    ..b>Nucleic acids are detected with SYBR Green EMSA dye, while proteins are subsequently detected with SYPRO Ruby EMSA dye...
  85. ncbi Reference ranges of urinary biomarkers of oxidized guanine in (2'-deoxy)ribonucleotides and nucleic acids
    Roberta Andreoli
    Laboratory of Industrial Toxicology, Department of Clinical Medicine, Nephrology, and Health Sciences, ISPESL National Institute for Occupational Safety and Prevention, Research Center, University of Parma, Parma, Italy
    Free Radic Biol Med 50:254-61. 2011
    ..was aimed at defining the reference ranges for biomarkers of oxidized guanine in (2'-deoxy)ribonucleotides and nucleic acids from a large Italian sample. We recruited 300 healthy subjects (150 males; mean age 44.1±13...
  86. ncbi Circulating nucleic acids in cancer and pregnancy
    Pamela Pinzani
    Department of Clinical Physiopathology, University of Florence and Istituto Toscano Tumori, Viale Pieraccini 6, 50139 Florence, Italy
    Methods 50:302-7. 2010
    Circulating nucleic acids are present in the blood of humans and other vertebrates...
  87. ncbi Comparison of commercial systems for extraction of nucleic acids from DNA/RNA respiratory pathogens
    Genyan Yang
    Division of Blood Disorders, National Center for Birth Defects and Developmental Disabilities, Centers for Disease Control and Prevention, Atlanta, GA 30329, USA
    J Virol Methods 171:195-9. 2011
    ..study compared six automated nucleic acid extraction systems and one manual kit for their ability to recover nucleic acids from human nasal wash specimens spiked with five respiratory pathogens, representing Gram-positive bacteria (..
  88. ncbi Preparation and characterization of monodisperse core-shell Fe3O4@SiO2 microspheres and its application for magnetic separation of nucleic acids from E. coli BL21
    Chao Ma
    State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Nanjing 210096, PR China
    J Biomed Nanotechnol 8:1000-5. 2012
    ..And then, the prepared monodisperse core-shell Fe3O4@SiO2 microspheres were subsequently applied to separate nucleic acids from the bacteria (E...
  89. ncbi Thermoplastic microfluidic device for on-chip purification of nucleic acids for disposable diagnostics
    Arpita Bhattacharyya
    Department of Biomedical Engineering, Boston University, Massachusetts 02215, USA
    Anal Chem 78:788-92. 2006
    A polymeric microfluidic device for solid-phase extraction (SPE)-based isolation of nucleic acids is demonstrated...
  90. ncbi Method for detection of specific nucleic acids by recombinant protein with fluorescent resonance energy transfer
    Tamaki Endoh
    Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259, Nagatsuta, Yokohama, 226 8501, Japan
    Anal Chem 77:4308-14. 2005
    Detection of specific nucleic acids is important to understand cellular mechanisms and functions of gene regulation. Here, we demonstrated a novel method to detect specific nucleic acids using recombinant protein and oligonucleotides...
  91. ncbi Archaeal nucleic acids in picoplankton from great lakes on three continents
    B P Keough
    University of Minnesota Duluth, Duluth, MN, USA
    Microb Ecol 46:238-48. 2003
    ..Despite their abundance in the water column of freshwater lakes, we have no representatives of these crenarchaea in pure culture, and so their physiological characteristics and ecological role remain unknown...
  92. ncbi Electrostatics of strongly charged biological polymers: ion-mediated interactions and self-organization in nucleic acids and proteins
    Gerard C L Wong
    Materials Science and Engineering Department, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Annu Rev Phys Chem 61:171-89. 2010
    ..Examples of polyelectrolyte association in biology include DNA packaging and RNA folding, as well as aggregation and self-organization phenomena in different disease states...
  93. ncbi Cationic polymer based nanocarriers for delivery of therapeutic nucleic acids
    Surendra Nimesh
    Laboratory of Biochemical Neuroendocrinology, Clinical Research Institute of Montreal, Montreal, Quebec, Canada H2W 1R7
    J Biomed Nanotechnol 7:504-20. 2011
    The design and development of nucleic acids based therapeutics for the treatment of diseases arising from genetic abnormalities has made significant progress over the past few years...
  94. ncbi Characterization of nucleic acids by nanopore analysis
    David W Deamer
    Department of Chemistry and Biochemistry, University of California, Santa Cruz, California 95064, USA
    Acc Chem Res 35:817-25. 2002
    ..As each molecule occupies the pore, a characteristic blockade of ionic current is produced. Information about length, composition, structure, and dynamic motion of the molecule can be deduced from modulations of the current blockade...
  95. pmc Electrostatic-assembly-driven formation of supramolecular rhombus microparticles and their application for fluorescent nucleic acid detection
    Hailong Li
    State Key Lab of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, China
    PLoS ONE 6:e18958. 2011
    ..In the following assay, specific hybridization with its target to form double-stranded DNA (dsDNA) results in desorption of ssDNA from SRM surface and subsequent fluorescence recovery...
  96. pmc Nucleoside, nucleotide and oligonucleotide based amphiphiles: a successful marriage of nucleic acids with lipids
    Arnaud Gissot
    Universite Victor Segalen, Bordeaux, F 33076, France
    Org Biomol Chem 6:1324-33. 2008
    ..This Perspective highlights their synthesis, supramolecular organization as well as their applications in the field of biotechnology...
  97. ncbi Circular dichroism spectroscopic studies reveal pH dependent binding of curcumin in the minor groove of natural and synthetic nucleic acids
    Ferenc Zsila
    Institute of Biomolecular Chemistry, Chemical Research Center, H 1525, Budapest, P O Box 17, Hungary
    Org Biomol Chem 2:2902-10. 2004
    ..As well as being an essentially new phenolic minor groove binder agent curcumin is also a promising molecular probe to study biologically important, pH and cation induced conformational polymorphisms of nucleic acids.
  98. pmc Intraneuronal amyloid beta accumulation and oxidative damage to nucleic acids in Alzheimer disease
    Akihiko Nunomura
    Department of Neuropsychiatry, Interdisciplinary Graduate School of Medicine and Engineering, University of Yamanashi, 1110 Shimokato, Chuo, Yamanashi 409 3898, Japan
    Neurobiol Dis 37:731-7. 2010
    ..disease, we used an in situ approach to identify amyloid-beta (Abeta) accumulation and oxidative damage to nucleic acids in postmortem brain tissue of the hippocampal formation from subjects with Alzheimer disease...
  99. pmc Pyrene excimer signaling molecular beacons for probing nucleic acids
    Patrick Conlon
    Center for Research at Bio nano Interface, Department of Chemistry and Shands Cancer Center, University of Florida Genetics Institute, University of Florida, Gainesville, Florida 32611 7200, USA
    J Am Chem Soc 130:336-42. 2008
    ..The long fluorescence lifetime ( approximately 40 ns), large Stokes shift (130 nm), and tunable intensity of the excimer make this multiple-pyrene moiety a useful alternative to traditional fluorophore labeling in nucleic acid probes...
  100. ncbi Fetal nucleic acids in maternal body fluids: an update
    Diana W Bianchi
    Tufts New England Medical Center, Box 394, 750 Washington Street, Boston, MA 02111, USA
    Ann N Y Acad Sci 1075:63-73. 2006
    ..On the other hand, we are cautious and concerned about the accuracy of "at-home" kits for fetal gender detection...
  101. ncbi Delivery of nucleic acids with a stearylated (RxR)4 peptide using a non-covalent co-incubation strategy
    Taavi Lehto
    Laboratory of Molecular Biotechnology, Institute of Technology, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
    J Control Release 141:42-51. 2010
    ..These features make this stearic acid modified analog of (RxR)(4) an intriguing vector for future in vivo experiments...

Research Grants75

  1. Personalized Clinical Diagnostics and Beyond: Integrated Ring Resonator Arrays
    Ryan Bailey; Fiscal Year: 2009
    ..This technology promises to broadly impact the landscape of the biomedical sciences, both meeting the clinical diagnostic challenges of today and pioneering the paradigm-shifting discoveries of tomorrow. ..
  2. Roles for microRNA-122 in hepatitis C virus RNA amplification
    Peter Sarnow; Fiscal Year: 2013
    ..in the viral life cycle and in cholesterol biosynthesis using a novel class of antisense molecules, locked nucleic acids (LNAs) that can easily be delivered to the liver in animals where it sequesters miR-122 in an inactive small ..
  3. Overcoming Temozolomide Resistance using MGMT-targeting Spherical Nucleic Acids
    TIMOTHY L SITA; Fiscal Year: 2013
    ..interfering RNA (siRNA) duplexes densely conjugated to the surface of gold nanoparticles (MGMTi-Spherical Nucleic Acids (SNAs))...
  4. Inhibiting Mucosal HIV-1 Transmission by Host Cell RNA Interference
    Alexandra L Howell; Fiscal Year: 2013
    ..and dendritic cells (DC) in mucosal tissues express receptors that are triggered by viral proteins and nucleic acids, leading to the secretion of anti-viral factors that destroy the invading pathogen...
  5. Photodynamic Therapy of Localized Infections
    Michael R Hamblin; Fiscal Year: 2013
    ..f oxygen to produce reactive oxygen species that damage biological molecules such as proteins, lipids and nucleic acids and subsequently cause cell death...
  6. DNA Repair Deficiency Associated with Obesity and the Metabolic Syndrome
    R Stephen Lloyd; Fiscal Year: 2013
    ..Although it is well established that lipids, proteins and nucleic acids are critical cellular targets for endogenously and exogenously produced ROS, until recently, deficiencies in ..
  7. Localization and characterization of the Clostridium difficile biofilm
    Adam Driks; Fiscal Year: 2013
    ..Using laser-scanning confocal microscopy, we found that polysaccharides and nucleic acids are present in the matrix...
  8. Sterile Hepatic Inflammation
    Wajahat Zafar Mehal; Fiscal Year: 2012
    ..for the development of sterile inflammation in the liver: Signal 1) Activation of TLR 7 and 9 by mammalian nucleic acids resulting in up-regulation of pro-IL-1b and pro-IL-18 and signal 2) Activation of the inflammasome and ..
  9. Neuronal mRNA PET Imaging
    Eric Wickstrom; Fiscal Year: 2010
    ..The mRNA targeting agents are peptide nucleic acids (PNAs). When radiolabeled and administered i.v...
  10. Characterizing gene regulation with single molecule sensitive probes
    Philip J Santangelo; Fiscal Year: 2013
    ..Recently we have developed a new probe consisting of four high-affinity, nuclease resistant, linear nucleic acids, labeled with multiple, high quantum-yield fluorophores linked together by streptavidin, via the biotin-..
  11. Dopamine Transporter Structure and Function
    Christopher K Surratt; Fiscal Year: 2010
    ..these targets via site-directed DAT mutagenesis, transfecting mammalian cells with wildtype or mutant DAT nucleic acids, assaying transfected cells for binding and uptake of DAT ligands, assessment of cell surface expression and ..
  12. Feto-maternal DNA/RNA Trafficking: Biology and Application
    Diana W Bianchi; Fiscal Year: 2013
    ..application we propose to add a new dimension to fetal evaluation by developing an understanding of cell-free nucleic acids as novel biomarkers of normal and abnormal fetal functional development at different gestational ages...
  13. MECHANISM AND CONTROL OF UREA BIOSYNTHESIS
    Frank M Raushel; Fiscal Year: 2011
    ..catalyzed by members of the amidotransferase superfamily are critical for the biosynthesis of carbohydrates, nucleic acids, amino acids and essential coenzymes and thus these enzymes are attractive targets for pharmaceutical ..
  14. In vivo targeted gene silencing, a novel method
    WILLIAM ANTHONY TRUITT; Fiscal Year: 2012
    ..PUBLIC HEALTH RELEVANCE: Peptide nucleic acids are powerful molecules for genetic manipulations and represent potential improvement to current methods of ..
  15. Regulation of the anti-phospholipid response in SLE
    Anne Davidson; Fiscal Year: 2013
    ..formation and opsonization of apoptotic particles by IgG anti-phospholipid antibodies results in delivery of nucleic acids to TLR containing endosomes...
  16. Structures of RNA processing and Silencing Enzymes in Prokaryotes
    Hong Li; Fiscal Year: 2013
    ..transcribed and processed into small RNA molecules that then pattern with proteins to silence the new invader nucleic acids. This proposal will investigate the molecular mechanisms of two currently identified CRISPR machineries, that ..
  17. Gene therapy to support cone metabolism in retinitis pigmentosa
    Constance L Cepko; Fiscal Year: 2013
    ..They show greater oxidation of their nucleic acids, proteins, and lipids...
  18. 2011 Nucleic Acids Gordon Research Conference
    Christopher D Lima; Fiscal Year: 2011
    DESCRIPTION (provided by applicant): This proposal requests partial support for a meeting on Nucleic Acids as part of the Gordon Research Conference series to be held June 5-10, 2011 at the University of New England, Biddeford, Maine...
  19. Delivery of biologically active nucleic acids to epidermal cells
    ROGER L contact KASPAR; Fiscal Year: 2010
    DESCRIPTION (provided by applicant): The broad potential for using nucleic acids to treat human disease has not been realized...
  20. The role of XMRV, a newly discovered human retrovirus, in cancer pathogenesis
    Ila R Singh; Fiscal Year: 2013
    ..A recent search for viral nucleic acids in prostate cancer tissues led to the identification of a novel retrovirus, Xenotropic murine leukemia virus-..
  21. Role of Tumor and Stromal Cell Metabolism in Stress Adaptation and Progression
    EILEEN contact WHITE; Fiscal Year: 2010
    ..cells is necessary to provide the building blocks for the macromolecular synthesis of proteins, lipids and nucleic acids necessary to support tumor cell growth...
  22. Sex chromosome aneuploidies in autoimmune disease
    R Hal Scofield; Fiscal Year: 2013
    ..The DDX3X protein is a critical component of a cytoplasmic pathway that recognizes nucleic acids, and culminates in production of interferon...
  23. The role of neutrophil extracellular traps and NADPH oxidase in SLE pathogenesis
    ALLISON MARIE CAMPBELL; Fiscal Year: 2012
    ..SLE is characterized by loss of tolerance to self nucleic acids. The source of autoantigen that drives disease onset and progression is unclear...
  24. Small Molecule Probes for TAR DNA Binding Protein 43_TDP-43
    Allen B Reitz; Fiscal Year: 2012
    ..TDP-43 is a primarily nuclear protein that binds to nucleic acids and is believed to function in a variety of roles in the cell including nuclear transport and nucleic acid ..
  25. Beta-Globin Gene Correction Using Peptide Nucleic Acids for the Treatment of Sick
    GERALD FRANCIS VOVIS; Fiscal Year: 2010
    ..Helix Therapeutics is proposing to develop a therapeutic gene targeting agent to correct, in human hematopoietic stem cells, the mutation responsible for causing SCD and, thus, cure the disease permanently. ..
  26. MECHANISMS OF AUTOIMMUNITY IN SLE
    David Stephen Pisetsky; Fiscal Year: 2013
    ..These studies will determine whether complexes containing nucleic acids are comprised of microparticles;and 3) To define the immunological activity of microparticles, determining the ..
  27. Development of Ets2-Inhibitors
    DEV ARYA; Fiscal Year: 2009
    b>Nucleic acids are central molecules in the transmission, expression and conservation of genetic information...
  28. Triplex-mediated DNA repair as a novel therapy for Hurler Syndrome patients
    Elizabeth Peterson-Roth; Fiscal Year: 2012
    ..CD34+ cells is the use of triplex molecules, either in the form of triplex-forming oligonucleotides or peptide nucleic acids. These molecules bind to duplex DNA in a sequence-specific manner and stimulate recombination when combined ..
  29. Global Proteomic Screening by MALDI Spectrometric Imaging of Protein-Bead Arrays
    Mark Lim; Fiscal Year: 2012
    ..of potential interactions that can occur with other cellular and extracellular molecules including proteins, nucleic acids, lipids and small molecules...
  30. STRUCTURE AND FUNCTION OF NUCLEIC ACIDS
    Ignacio Tinoco; Fiscal Year: 2013
    ..This information will lead to improved understanding of RNA structure, stability, and dynamics. It will help in understanding RNA function, and in controlling the role of RNA in human diseases. ..
  31. Structure and mechanism of CRISPR interference.
    Ailong Ke; Fiscal Year: 2013
    ..CRISPR drives adaptation to harmful invading nucleic acids - such as conjugative plasmids, transposable elements and phages - using an RNA-mediated interference (CRISPR ..
  32. Plasma RNA based Early Lung Cancer Detection by Tethered Cationic Lipoplex Assay
    SERGE P NANA-SINKAM; Fiscal Year: 2013
    ..Since miRNAs are more stable than other nucleic acids such as mRNA in blood or other body fluids because they could be protected by bounding to endogeneous RNase ..
  33. Targeting Pneumococcal Virulence Factors in Otitis Media
    Honggao Yan; Fiscal Year: 2012
    ..Aptamers are small single-stranded nucleic acids that bind a molecular or cellular target with high affinity and their biochemical properties rival or are ..
  34. The Vaginal Microbiome: Disease, Genetics and the Environment
    GREGORY ALLEN BUCK; Fiscal Year: 2012
    ..of high throughput 'nextgen'sequencing technologies, including the Roche 454 FLX and the upgraded Illumina Genome Analyzer II instruments currently installed in the Nucleic Acids Research Facilities at VCU.
  35. Linkage of Lung Inflammation to 8-oxoguanine and OGG1
    ISTVAN STEVEN BOLDOGH; Fiscal Year: 2013
    ..by applicant): 8-oxo-7,8-dihydroguanine (8-oxoG), often used as a marker of oxidative stress, is generated in nucleic acids by environmental and endogenous reactive oxygen species (ROS)...
  36. Aptamer probes for Epigenetic Peptide Targets
    MARK PATRICK MCPIKE; Fiscal Year: 2010
    ..In this project a set of epigenetic peptide and protein targets will be screened against libraries of nucleic acids using OrthoSystems new and highly successful approach, High Throughput Screening of Aptamers (HTSA), for ..
  37. miR-10a regulation of regional arterial endothelial phenotypes in atherosclerosis
    Yun Fang; Fiscal Year: 2012
    ..My studies analyze the regulatory role of small nucleic acids called microRNAs in cells in relation to atherosusceptibility and blood flow...
  38. Advanced Immunocytochemistry, In Situ Hybridization and Live Cell Imaging Course
    TERRI I GRODZICKER; Fiscal Year: 2013
    ..to Principal Investigators) to directly use advanced and/or specialized techniques in microscopy to localize nucleic acids and proteins and provides background on the biochemical concepts underlying these techniques...
  39. Targeted DNA Nanoparticles in Brain
    David M Yurek; Fiscal Year: 2010
    ..PUBLIC HEALTH RELEVANCE: The proposed studies will use a novel nanoparticle technology that allows nucleic acids (DNA) to be compacted near their theoretical limit;this technology almost duplicates the compaction efficiency ..
  40. Point of care microfluidic diagnosis system for rapid and sensitive detection of
    Michel G Bergeron; Fiscal Year: 2013
    ..nasopharyngeal swab samples, (ii) extract viral RNA/DNA in a sufficiently pure form, (iii) amplify and label nucleic acids, (iv) process labelled-amplicons, (v) hybridize amplicons on low density microarrays, (vi) read and interpret ..
  41. Age-related Response of Hippocampal Neurons to Stress
    Gregory Brewer; Fiscal Year: 2009
    ..While evidence for age-related damage to nucleic acids, proteins and lipids abound, the proposed studies will strategically focus on the sources or conditions that ..
  42. Modulation of Glioma Growth and Invasion by HCMV Glycoprotein B
    Liliana Soroceanu; Fiscal Year: 2010
    ..Our laboratory was the first to show that human cytomegalovirus (HCMV) nucleic acids and proteins are present in over 90% of human malignant gliomas, and these findings have now been confirmed by ..
  43. Gender-Specific Role of Aim2 in Inflammation and Autoimmunity
    Divaker Choubey; Fiscal Year: 2011
    The innate immune system senses non-self nucleic acids through pattern recognition receptors. Little is known about sensors for cytoplasmic DNA...
  44. Regulation of the anti-phospholipid response in SLE
    Anne Davidson; Fiscal Year: 2009
    ..formation and opsonization of apoptotic particles by IgG anti-phospholipid antibodies results in delivery of nucleic acids to TLR containing endosomes...
  45. 10-Theory and Experiment for Genome Packaging in HBV Nucleocapsids
    JIANZHONG contact WU; Fiscal Year: 2010
    ..Specific aims include: 1) To determine the density distributions of the genomic nucleic acids and the C-terminal domain (CTD) of the core protein and their potential changes during NC maturation;2) To ..
  46. Specification of alternate siRNA biogenesis pathways in Arabidopsis
    TODD LUCAS BLEVINS; Fiscal Year: 2011
    ..Public Health Relevance: Because siRNAs anneal to and target nucleic acids with exquisite specificity, RNA silencing has potential for gene therapy and antiviral applications...
  47. Role of microRNA in HIV associated neurological disorder (HAND).
    Bassel E Sawaya; Fiscal Year: 2013
    ..of endogenous genes, siRNAs are described as defenders of genome integrity in response to foreign or invasive nucleic acids such as viruses, transposons, and transgenes...
  48. Multiplex ALEX-based Test for Protease Activity Profiling in Arthritic Joints
    ARMIN H REITMAIR; Fiscal Year: 2013
    ..expanding its multiplexing power, and demonstrated diagnostic utility for detection of proteins and nucleic acids. Furthermore, recent work by our consultants Profs...
  49. The Role of CD8 T Cells in Chronic Granulomatous Inflammation
    Kyra A Oswald-Richter; Fiscal Year: 2013
    ..in sarcoidosis immunopathogenesis has been demonstrated by the detection of mycobacterial proteins and nucleic acids in sarcoidosis granulomas, as well as humoral and peripheral cellular immune responses to mycobacterial ..
  50. Metabolic Engineering of Chinese Hamster Ovary Cells for Production of Heparin
    Susan T Sharfstein; Fiscal Year: 2011
    ..FDA as a host for the production of human therapeutics, and protocols exist for removal of host cell proteins, nucleic acids, and viral contaminants...
  51. In utero protein transduction to interrogate inner ear sensory patch formation
    JOHN VINCENT BRIGANDE; Fiscal Year: 2013
    ..An additional property of surface remodeled proteins is their ability to reversibly complex with nucleic acids while retaining their protein transduction characteristics...
  52. Engineering a packaging nanomotor for delivery of RNA and other molecules
    Venigalla B Rao; Fiscal Year: 2010
    ..lends itself well to the high-throughput format, allowing hundreds of mutant proteins and several different nucleic acids to be tested...
  53. DEVELOPING SOLUTES AS STRUCTURAL/MECHANISTIC PROBES OF PROTEIN-DNA INTERACTIONS
    M Thomas Record; Fiscal Year: 2013
    ..to as solutes) exert often large, specific effects on fundamental biological processes involving proteins and nucleic acids (e.g. folding, assembly, binding, aggregation)...
  54. Development of a Urine Test for the Early Detection of Colon Cancer
    Wei Song; Fiscal Year: 2012
    ..Urine contains nucleic acids that can be used for the early detection of diseases and cancers that occur at non-urinary tract sites...
  55. Cellular Responses to Oxidative Stress in Models of Colon Cancer Development
    Paul W Doetsch; Fiscal Year: 2012
    ..aberrant signal transduction and oxidative damage to cellular macromolecules, including lipids, proteins and nucleic acids. Such oxidative changes directly contribute to a variety of deleterious biological endpoints associated with ..
  56. An infrastructure for cancer virus discovery from next-generation sequencing data
    Matthew L Meyerson; Fiscal Year: 2010
    ..This approach starts with the assumption that virally-induced cancers contain both human and viral nucleic acids, and that subtraction of the human genome from cancer-derived sequences will leave residual candidate non-..
  57. Novel Fluorescent Nucleotide Analogues to Probe Nucleic Acid Metabolism
    BYRON WILLIS PURSE; Fiscal Year: 2010
    ..with Nature's machinery for DNA and RNA synthesis (DNA and RNA polymerases), and minimally perturbing the nucleic acids, once incorporated...
  58. Exploring how the genome folds through proximity ligation and sequencing
    Erez Lieberman-Aiden; Fiscal Year: 2011
    ..In proximity ligation, spatially proximate nucleic acids ligate to one another, forming a chimeric oligo...
  59. Antagonism of Innate Immunity By Picornaviruses
    Vincent R Racaniello; Fiscal Year: 2013
    ..Those programs that have evolved to repel cellular invaders recognize and respond to alien nucleic acids and other microbial products...
  60. DNA - DNA interactions with atomic detail
    Lois Pollack; Fiscal Year: 2013
    ..The in vivo packaging of these nucleic acids (NAs) enables the efficient storage of genetic information;strategies for in vitro packaging are crucial for ..
  61. Specificity of CD8 cells in islets from type 1 diabetes patients
    Matthias G Von Herrath; Fiscal Year: 2013
    ..human sections from pancreata of diabetic patients will be probed with [CVB-specific] tetramers and viral nucleic acids will be detected in collaboration with Heikki Hyoty and Stephen Tracy...
  62. Nitric oxide and mitochondrial biogenesis in sepsis
    Claude A Piantadosi; Fiscal Year: 2012
    ..mitochondrial damage and loss of NO signal specificity by chemical attack of NO species (NOx) on proteins and nucleic acids. We hypothesize that NOS2, acting in part through AMPK, is required for apposite regulation of the ..
  63. FREE RADICAL LIPID PEROXIDATION DAMAGE
    ALOYS TAPPEL; Fiscal Year: 1991
    ..and antioxygenic protectors as determined by differential biochemical damage to lipids, proteins, and nucleic acids; and (ii) to evaluate antioxidant systems in living animals...
  64. DNA and RNA Stability in Glycine Betaine, TMAO, and Urea Solutions: Correlating S
    JEFFREY JAMES contact SCHWINEFUS; Fiscal Year: 2010
    DESCRIPTION (provided by applicant): Cellular biochemical reactions involving nucleic acids occur in aqueous solutions of salts, cosolutes, and biopolymers, such as proteins...
  65. Applicability of smartDNA Rapid Detection of Priority Agents in Food
    RICHARD BLIDNER; Fiscal Year: 2009
    ..rapid, isothermal (including room temperature), sequence-specific, colorimetric system for the detection of nucleic acids. Investigen currently has a smartDNA-based assay for the detection of Mycobacterium tuberculosis from sputum...
  66. Rapid Generation of High Affinity Protein Sensor Elements
    HYONGSOK SOH; Fiscal Year: 2009
    ..Aptamers are functional binding molecules composed of nucleic acids which are selected from combinatorial nucleic acid libraries by in vitro selection through a process known as ..
  67. PROTEIN BINDING DOMAINS ON EUKARYOTIC 5S RRNA AND RDNA
    Paul Huber; Fiscal Year: 2000
    ..We have concentrated on the ability of TFIIIA to bind to both nucleic acids since this is fundamental to the regulatory activity of the protein and because it provides a unique problem ..
  68. Computational Suite for RNA-Targeted Drug Design
    Erin Duffy; Fiscal Year: 2005
    ..Importantly, the antibiotics principally and nearly exclusively interact with the nucleic acids and ions in the SOS ribosomal subunit; that is, protein ligand interactions are largely absent in these ..
  69. METABOLIC ACTIVATION OF ARYLAMINES IN LEUKOCYTES
    Michael Corbett; Fiscal Year: 1991
    ..The macromolecules of greatest interest are DNA and RNA. Covalent binding to these nucleic acids will be studied both within the leukocytes which are responsible for causing such binding, and also to nucleic ..
  70. SUBUNIT INTERACTIONS IN DNA BINDING PROTEINS
    Catherine Royer; Fiscal Year: 1992
    Proteins that bind to nucleic acids are involved in many important biological processes, including replication, transcription, translation, and recombination events...
  71. Efficient Synthesis of Se-DNAs and Se-RNAs for Structure and Function Studies
    Zhen Huang; Fiscal Year: 2010
    DESCRIPTION (provided by applicant): There are growing demands for 3D structure determination of nucleic acids and protein-nucleic acid complexes for understanding disease molecule-level mechanisms and discovering new drugs...
  72. Illuminating the Mechanistic Pathways of Polymer-Mediated Nucleic Acid Delivery
    Theresa M Reineke; Fiscal Year: 2010
    ..The intracellular delivery of nucleic acids to study these processes offers unprecedented promise for revolutionizing biomedical research and drug ..
  73. Novel-Non-Viral Delivery of IFN Gene to Cancer Cells
    NATHALIE BELLOCQ; Fiscal Year: 2004
    ..The polycation interacts with nucleic acids of sizes from short single-stranded oligonucleotides to large plasmids and self-assembles with the nucleic ..
  74. NEW APPROACHES TO ANALYSIS OF BIOPOLYMERS
    Alexander Varshavsky; Fiscal Year: 1990
    ..to these problems: (1) An "indirect-labeling" method for post-separation autoradiographic detection of nucleic acids and proteins using neutron activation; (2) A method for mapping in vivo DNA-protein contacts in chromosomes ..
  75. Acquisition of an LC Mass Spectrometer for Nucleic Acids Research
    Patrick A Limbach; Fiscal Year: 2010
    ..mass spectrometry (UPLC-MS) system intended for the identification and structural characterization of nucleic acids, including those containing modified nucleosides...