Genomes and Genes
Summary: Macromolecular molds for the synthesis of complementary macromolecules, as in DNA REPLICATION; GENETIC TRANSCRIPTION of DNA to RNA, and GENETIC TRANSLATION of RNA into POLYPEPTIDES.
Publications295 found, 100 shown here
- Rapid amplification of plasmid and phage DNA using Phi 29 DNA polymerase and multiply-primed rolling circle amplificationF B Dean
Molecular Staging, Inc, New Haven, Connecticut 06511, USA
Genome Res 11:1095-9. 2001..Amplified products can also be used for in vitro cloning, library construction, and other molecular biology applications...
- DNA primasesD N Frick
Department of Biochemistry and Molecular Biology, New York Medical College, Valhalla, New York 10595, USA
Annu Rev Biochem 70:39-80. 2001..The small eukaryotic primase subunit contains the active site for RNA synthesis, and its activity correlates with DNA replication during the cell cycle...
- Overexpression of human DNA polymerase mu (Pol mu) in a Burkitt's lymphoma cell line affects the somatic hypermutation rateJose F Ruiz
Centro de Biologia Molecular Severo Ochoa CSIC UAM, Universidad Autonoma, Madrid, Spain
Nucleic Acids Res 32:5861-73. 2004....
- Lack of sugar discrimination by human Pol mu requires a single glycine residueJose F Ruiz
Centro de Biologia Molecular Severo Ochoa CSIC UAM, Campus de la Universidad Autonoma de Madrid, Cantoblanco, 28049 Madrid, Spain
Nucleic Acids Res 31:4441-9. 2003..The unusual capacity to insert both rNTPs and dNTPs will be discussed in the context of the predicted roles of Pol mu in DNA repair...
- Label-retaining epithelial cells in mouse mammary gland divide asymmetrically and retain their template DNA strandsGilbert H Smith
Laboratory of Mammary Gland Biology and Tumorigenesis, Center for Cancer Research, National Cancer Institute, Bethesda, MD 20892, USA
Development 132:681-7. 2005....
- A mechanism for initiating RNA-dependent RNA polymerizationS J Butcher
Institute of Biotechnology and Department of Biosciences, Viikki Biocenter, PO Box 56 (Viikinkaari 5, 00014 University of Helsinki, Finland
Nature 410:235-40. 2001..Our results provide a working model for the initiation of replication and transcription...
- Intestinal stem cells protect their genome by selective segregation of template DNA strandsChristopher S Potten
Epithelial Biology Department, Paterson Institute for Cancer Research, Christie Hospital NHS Trust, Wilmslow Road, Manchester M9 4BX, UK
J Cell Sci 115:2381-8. 2002..The presence of these protective mechanisms ensures that the small intestine rarely develops cancer and that stem cells can sustain the extensive cell proliferation needed during life...
- DNA polymerase-mediated DNA synthesis on a TNA templateJohn 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...
- Positive correlation between DNA polymerase alpha-primase pausing and mutagenesis within polypyrimidine/polypurine microsatellite sequencesSuzanne E Hile
Department of Pathology, Gittlen Cancer Research Institute, The Pennsylvania State University College of Medicine, Hershey Medical Center, 500 University Drive, Hershey, PA 17033, USA
J Mol Biol 335:745-59. 2004..Thus, a positive correlation exists between polymerase alpha-primase pausing and mutagenesis within microsatellite DNA alleles...
- Protein structure prediction and structural genomicsD Baker
Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA
Science 294:93-6. 2001..We then discuss the important role that protein structure prediction methods play in the growing worldwide effort in structural genomics...
- The GAA*TTC triplet repeat expanded in Friedreich's ataxia impedes transcription elongation by T7 RNA polymerase in a length and supercoil dependent mannerE Grabczyk
Section on Genomic Structure and Function, Laboratory of Molecular and Cellular Biology, National Institute of Diabetes and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 0830, USA
Nucleic Acids Res 28:2815-22. 2000..The non-template (GAA) strand folds back creating a loop in the template strand, and the polymerase is paused at the distal triplex-duplex junction...
- Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutationsSean J Johnson
Department of Biochemistry, Duke University Medical Center, Durham, NC 27710, USA
Proc Natl Acad Sci U S A 100:3895-900. 2003....
- BTA, a novel reagent for DNA attachment on glass and efficient generation of solid-phase amplified DNA coloniesMilan Fedurco
Manteia Predictive Medicine S A Zone Industrielle Coinsins, CH 1267, Switzerland
Nucleic Acids Res 34:e22. 2006..DNA colonies generated using the BTA reagent can be used for further sequence analysis in an unprecedented parallel fashion for low-cost genomic studies...
- CPD damage recognition by transcribing RNA polymerase IIFlorian Brueckner
Munich Center for Integrated Protein Science CiPS, Ludwig Maximilians Universitat Munchen, Feodor Lynen Strasse 25, 81377 Munich, Germany
Science 315:859-62. 2007..This is consistent with nonallosteric recruitment of repair factors and excision of a lesion-containing DNA fragment in the presence of Pol II...
- Template boundary definition in Tetrahymena telomeraseCary K Lai
Department of Molecular and Cell Biology, University of California, Berkeley, California 94720 3204, USA
Genes Dev 16:415-20. 2002..Our results indicate that sequence-specific interaction of a telomerase RNA element with the TERT RNA binding domain, not the active site motifs, defines the template boundary...
- Mutational analysis of the influenza virus cRNA promoter and identification of nucleotides critical for replicationMandy Crow
Sir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, United Kingdom
J Virol 78:6263-70. 2004..Overall, our results suggest that the corkscrew secondary-structure model is required for authentic cRNA promoter activity in vivo, although the precise role of the 3' hairpin loop remains unknown...
- The hyperthermophilic euryarchaeota Pyrococcus abyssi likely requires the two DNA polymerases D and B for DNA replicationGhislaine Henneke
IFREMER, UMR 6197, Laboratoire de Microbiologie et Environnements Extrêmes, DRV VP LM2E, BP 70, F 29280 Plouzane, France
J Mol Biol 350:53-64. 2005..Our data imply that PabPolD might play an important role in DNA replication likely together with PabpolB, suggesting that archaea require two DNA polymerases at the replication fork...
- Structural basis for the transition from initiation to elongation transcription in T7 RNA polymeraseY Whitney Yin
Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, New Haven, CT 06520 8114, USA
Science 298:1387-95. 2002..Downstream duplex DNA binds to the fingers domain, and its orientation relative to upstream DNA in the initiation complex implies an unwinding that could facilitate formation of the open promoter complex...
- 8-oxodGTP incorporation by DNA polymerase beta is modified by active-site residue Asn279H Miller
Department of Pharmacological Sciences, SUNY Stony Brook, Stony Brook, New York 11794 8651, USA
Biochemistry 39:1029-33. 2000..This suggests that interactions of 8-oxodGTP with Asn279 in the polymerase active site may alter the conformation of 8-oxodGTP and therefore alter its misincorporation...
- Single-molecule DNA sequencing of a viral genomeTIMOTHY D HARRIS
Helicos BioSciences Corporation, One Kendall Square, Cambridge, MA 02139, USA
Science 320:106-9. 2008..This demonstrates a strategy for high-throughput low-cost resequencing...
- Mechanism of template-independent nucleotide incorporation catalyzed by a template-dependent DNA polymeraseKevin A Fiala
Department of Biochemistry, The Ohio State University, Columbus, OH 43210, USA
J Mol Biol 365:590-602. 2007..This unprecedented base-stacking pattern can be applied to subsequent blunt-end additions only if all incorporated dAMPs are extrahelical, leading to predominantly single non-templated dATP incorporation...
- A gradient of template dependence defines distinct biological roles for family X polymerases in nonhomologous end joiningStephanie A Nick McElhinny
Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA
Mol Cell 19:357-66. 2005..This apparent gradient of template dependence is largely attributable to a small structural element that is present but different in all three polymerases...
- Crucial role of the RNA:DNA hybrid in the processivity of transcriptionI Sidorenkov
ABL Basic Research Program, National Cancer Institute Frederic Cancer Research and Development Center, Maryland 21702 1201, USA
Mol Cell 2:55-64. 1998..Our data show that a hybrid at least 9 nt long, formed between the template DNA and 3'-proximal RNA transcript, is necessary for the high processivity of EC during RNA chain elongation...
- Estrogen receptor-alpha and progesterone receptor are expressed in label-retaining mammary epithelial cells that divide asymmetrically and retain their template DNA strandsBrian W Booth
Mammary Biology and Tumorigenesis Laboratory, National Cancer Institute, National Institute of Health, Bethesda, Maryland, USA
Breast Cancer Res 8:R49. 2006..Mouse mammary epithelium contains label-retaining epithelial cells that divide asymmetrically and retain their template DNA...
- A specific loop in human DNA polymerase mu allows switching between creative and DNA-instructed synthesisRaquel Juarez
Centro de Biologia Molecular Severo Ochoa CSIC UAM, Campus Universidad Autónoma Canto Blanco, 28049 Madrid, Spain
Nucleic Acids Res 34:4572-82. 2006..Recent in vivo and in vitro data suggest that such a dual capacity could be advantageous to resolve microhomology-mediated end-joining reactions...
- Error rate and specificity of human and murine DNA polymerase etaT Matsuda
Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC 27709, USA
J Mol Biol 312:335-46. 2001..The nature and location of these errors suggest that some may be initiated by strand slippage, while others result from additional mechanisms...
- Fate of DNA replication fork encountering a single DNA lesion during oriC plasmid DNA replication in vitroKumiko Higuchi
Department of Molecular Biology, Graduate School of Biological Sciences, Nara Institute of Science and Technology, Takayama cho 8916 5, Ikoma, Nara 630 0101, Japan
Genes Cells 8:437-49. 2003....
- Template boundary definition in mammalian telomeraseJiunn Liang Chen
Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA
Genes Dev 17:2747-52. 2003..The divergent structure of boundary definition elements in mammals, yeast, and ciliates suggests diverse mechanisms for template boundary definition in telomerase...
- Interaction of RNA polymerase with forked DNA: evidence for two kinetically significant intermediates on the pathway to the final complexLaura Tsujikawa
Department of Biochemistry, Case Western Reserve University, Cleveland, OH 44106 4935, USA
Proc Natl Acad Sci U S A 99:3493-8. 2002....
- Allosteric binding of nucleoside triphosphates to RNA polymerase regulates transcription elongationJ E Foster
Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599, USA
Cell 106:243-52. 2001....
- The DNA primase of Sulfolobus solfataricus is activated by substrates containing a thymine-rich bubble and has a 3'-terminal nucleotidyl-transferase activityMariarosaria De Falco
Istituto di Biochimica delle Proteine, Consiglio Nazionale delle Ricerche, Via P Castellino, 111, 80131 Napoli, Italy
Nucleic Acids Res 32:5223-30. 2004..Interestingly, the Sso DNA primase complex is endowed with a terminal nucleotidyl-transferase activity, being able to incorporate nucleotides at the 3' end of synthetic oligonucleotides in a non-templated manner...
- Analysis of any point mutation in DNA. The amplification refractory mutation system (ARMS)C R Newton
ICI Diagnostics, Northwich, Cheshire, UK
Nucleic Acids Res 17:2503-16. 1989..Our findings are in complete agreement with allele assignments derived by direct sequencing of PCR products...
- Multiple mechanisms control chromosome integrity after replication fork uncoupling and restart at irreparable UV lesionsMassimo Lopes
Department of Biology, Institute of Cell Biology, ETH Honggerberg, CH 8093 Zurich, Switzerland
Mol Cell 21:15-27. 2006....
- A DNA replication mechanism for generating nonrecurrent rearrangements associated with genomic disordersJennifer A Lee
Department of Molecular and Human Genetics, Baylor College of Medicine, Houston TX, 77030, USA
Cell 131:1235-47. 2007..We propose that complex duplication and deletion rearrangements associated with PMD, and potentially other nonrecurrent rearrangements, may be explained by this replication-based mechanism...
- High-affinity ssDNA inhibitors of the reverse transcriptase of type 1 human immunodeficiency virusD J Schneider
Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder 80309, USA
Biochemistry 34:9599-610. 1995..These ssDNA molecules may be useful as inhibitors or as models for the design of small molecule inhibitors of HIV-1 RT in vivo...
- Human telomerase contains two cooperating telomerase RNA moleculesC Wenz
Swiss Institute for Experimental Cancer Research, CH 1066 Epalinges, Switzerland
EMBO J 20:3526-34. 2001..We conclude that the telomerase RNA templates in the active enzyme are interdependent and functionally cooperate with each other. We discuss models that may explain the biological and enzymatic roles of telomerase dimerization...
- Novel non-templated nucleotide addition reactions catalyzed by procaryotic and eucaryotic DNA polymerasesJ M Clark
Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709
Nucleic Acids Res 16:9677-86. 1988..These results demonstrate that template instruction is not an absolute requirement for the catalysis of nucleotidyl transfer reactions by DNA polymerases...
- Potent inhibition of human immunodeficiency virus type 1 replication by template analog reverse transcriptase inhibitors derived by SELEX (systematic evolution of ligands by exponential enrichment)Pheroze Joshi
Department of Microbiology and Immunology, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, USA
J Virol 76:6545-57. 2002..As virion-encapsidated TRTIs can predispose virions for inhibition immediately upon entry, they should prove to be efficacious agents in gene therapy approaches for AIDS...
- Stable association of hsp90 and p23, but Not hsp70, with active human telomeraseH L Forsythe
Departments of Pathology and Human Genetics, Massey Cancer Center, Medical College of Virginia at Virginia Commonwealth University, Richmond, Virginia 23298 0662, USA
J Biol Chem 276:15571-4. 2001....
- Structural explanation for the role of Mn2+ in the activity of phi6 RNA-dependent RNA polymeraseMinna M Poranen
Institute of Biotechnology and Department of Biological and Environmental Sciences, Viikki Biocenter, P O Box 56 Viikinkaari 5 00014 University of Helsinki, Finland
Nucleic Acids Res 36:6633-44. 2008..The structural flexibility caused by Mn(2+) is also important for the enzyme dynamics, explaining the requirement for manganese throughout RNA polymerization...
- Effect of 8-oxoguanine on transcription elongation by T7 RNA polymerase and mammalian RNA polymerase IISilvia Tornaletti
Department of Biological Sciences, Stanford University, Stanford, CA 94305 5020, USA
DNA Repair (Amst) 3:483-94. 2004..These results are discussed in the context of possible models for TCR...
- Specialized DNA polymerases, cellular survival, and the genesis of mutationsErrol C Friedberg
Laboratory of Molecular Pathology, Department of Pathology, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
Science 296:1627-30. 2002..The low fidelity of some of these specialized polymerases when copying undamaged DNA may be physiologically functional, including generating immunoglobulin diversity...
- Replication fork reactivation downstream of a blocked nascent leading strandRyan C Heller
Molecular Biology Program, Weill Graduate School of Medical Sciences of Cornell University, New York, New York 10021, USA
Nature 439:557-62. 2006....
- Transcription-targeted DNA deamination by the AID antibody diversification enzymeJayanta Chaudhuri
Howard Hughes Medical Institute, The Children s Hospital, The Center for Blood Research, and Department of Genetics, Harvard University Medical School, Boston, Massachusetts 02115, USA
Nature 422:726-30. 2003..We conclude that transcription targets the DNA deamination activity of AID to dsDNA by generating secondary structures that provide ssDNA substrates...
- Antiretroviral drug resistance mutations in human immunodeficiency virus type 1 reverse transcriptase increase template-switching frequencyGalina N Nikolenko
HIV Drug Resistance Program, NCI Frederick, Bldg 535, Rm 334, Frederick, MD 21702, USA
J Virol 78:8761-70. 2004..These results also indicate that mutations conferring resistance to antiviral drugs can increase the frequency of RT template switching and may influence the rate of retroviral recombination and viral evolution...
- In vitro replication slippage by DNA polymerases from thermophilic organismsE Viguera
Laboratoire de Genetique Microbienne, Institut National de la Recherche Agronomique, Domaine de Vilvert 78350 Jouy en Josas, France
J Mol Biol 312:323-33. 2001..We show that these hairpin deletions occurring during PCR are due to replication slippage, and not to a previously proposed process involving polymerization across the hairpin base...
- Terminal nucleotidyl transferase activity of recombinant Flaviviridae RNA-dependent RNA polymerases: implication for viral RNA synthesisC T Ranjith-Kumar
Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
J Virol 75:8615-23. 2001....
- Reverse transcriptase incorporation of 1,5-anhydrohexitol nucleotidesK Vastmans
Laboratory of Medicinal Chemistry, Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium
Nucleic Acids Res 29:3154-63. 2001..These results could be rationalised based on the X-ray structure of HIV-1 reverse transcriptase...
- MutT protein specifically hydrolyses a potent mutagenic substrate for DNA synthesisH Maki
Department of Biochemistry, Faculty of Medicine, Kyushu University, Fukuoka, Japan
Nature 355:273-5. 1992..This indicates that elimination from the nucleotide pool of the oxidized form of guanine nucleotide is important for the high fidelity of DNA synthesis...
- KMnO4 as a probe for lac promoter DNA melting and mechanism in vivoS Sasse-Dwight
Department of Chemistry and Biochemistry, University of California, Los Angeles 90024
J Biol Chem 264:8074-81. 1989....
- Incorporation of non-nucleoside triphosphate analogues opposite to an abasic site by human DNA polymerases beta and lambdaEmmanuele Crespan
Istituto di Genetica Molecolare IGM CNR via Abbiategrasso 207, I 27100 Pavia, Italy
Nucleic Acids Res 33:4117-27. 2005..These results show for the first time that neither the base nor the sugar moieties of nucleotides are required for incorporation by family X DNA polymerases...
- Poliovirus cre(2C)-dependent synthesis of VPgpUpU is required for positive- but not negative-strand RNA synthesisB Joan Morasco
Department of Biochemistry and Molecular Biology, College of Medicine, University of Florida, Gainesville 32610 0245, USA
J Virol 77:5136-44. 2003..The pool of excess VPgpUpU synthesized on the cre(2C) hairpin should support high levels of positive-strand synthesis and thereby promote the asymmetric replication of poliovirus RNA...
- Requirement of RAD5 and MMS2 for postreplication repair of UV-damaged DNA in Saccharomyces cerevisiaeCarlos A Torres-Ramos
Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
Mol Cell Biol 22:2419-26. 2002..The possible roles of the Rad6-Rad18 and the Mms2-Ubc13 enzyme complexes in Rad5-dependent damage bypass are discussed...
- Synthesis and miscoding specificity of oligodeoxynucleotide containing 8-phenyl-2'-deoxyguanosineK Kohda
Faculty of Pharmaceutical Sciences, Nagoya City University, Japan
Chem Res Toxicol 10:1351-8. 1997..dG. The duplex containing 8-PhdG.dA was thermodynamically more stable than dG.dA. We conclude that 8-PhdG is a weak miscoding lesion, capable of generating G-->T and G-->C transversions and deletions in cells...
- Characterization of a viroid-derived RNA promoter for the DNA-dependent RNA polymerase from Escherichia coliMartin Pelchat
RNA Group Groupe ARN, Departement de Biochimie, Faculte de Medecine, Universite de Sherbrooke, Sherbrooke, Quebec, J1H 5N4, Canada
Biochemistry 41:6561-71. 2002..Finally, we present several insights into the mechanism of the RNAP which reveal that it behaves differently with an RNA template as compared to a DNA one...
- Initiation of HIV-2 reverse transcription: a secondary structure model of the RNA-tRNA(Lys3) duplexF Freund
UMR-5097, , Case 103, , 33076 Bordeaux Cedex, France. IFR 66 'Pathologies Infectieuses, Bordeaux
Nucleic Acids Res 29:2757-65. 2001..In view of these experimental data and sequence comparison between different HIV-2 isolates, we propose a model for the secondary structure of the HIV-2 template-primer initiation complex...
- Proliferating cell nuclear antigen promotes misincorporation catalyzed by calf thymus DNA polymerase deltaD J Mozzherin
Department of Pharmacological Sciences, University Medical Center, State University of New York, Stony Brook, New York 11794 8651, USA
J Biol Chem 271:31711-7. 1996..template-primer complex in the presence of PCNA facilitates unfavorable events catalyzed by pol delta. This model suggests an explicit mechanistic requirement for the intrinsic 3'-5'-exonuclease of pol delta...
- Structure of DNA polymerase I Klenow fragment bound to duplex DNAL S Beese
Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06511
Science 260:352-5. 1993....
- DnaB helicase stimulates primer synthesis activity on short oligonucleotide templatesS K Johnson
Department of Chemistry, Center for Biotechnology, University of Nebraska Lincoln, Lincoln, Nebraska 68588 0304, USA
Biochemistry 39:736-44. 2000..In contrast, when primase acted alone, it stabilized the 3'-end hairpin conformation of the template so that the template's 3'-hydroxyl served as a "DNA primer" from which primase elongated to create the overlong primers...
- Structural and functional characterization of the coxsackievirus B3 CRE(2C): role of CRE(2C) in negative- and positive-strand RNA synthesisMark J M van Ooij
Radboud University Medical Centre Nijmegen, Nijmegen Centre for Molecular Life Science, Department of Medical Microbiology, The Netherlands
J Gen Virol 87:103-13. 2006....
- Pre-steady-state kinetic studies of the fidelity of human DNA polymerase muMichelle P Roettger
Department of Biochemistry, Ohio State Biochemistry Program, The Ohio State University, Columbus, Ohio 43210, USA
Biochemistry 43:13827-38. 2004..In addition to a slow and distributive DNA polymerase activity, Polmu was identified to possess a weak strand-displacement activity. The potential biological roles of Polmu are discussed...
- Identification of an RNA hairpin in poliovirus RNA that serves as the primary template in the in vitro uridylylation of VPgA V Paul
Department of Molecular Genetics and Microbiology, State University of New York at Stony Brook, Stony Brook, New York 11794, USA
J Virol 74:10359-70. 2000..The mechanism by which the VPgpUpU precursor, made specifically on the cre(2C) template, might be transferred to the site where it serves as primer for poliovirus RNA synthesis, remains to be determined...
- Nucleotides at the extremities of the viral RNA of influenza C virus are involved in type-specific interactions with the polymerase complexB Crescenzo-Chaigne
Unite de Genetique Moleculaire des Virus Respiratoires, URA 1966 CNRS, Institut Pasteur, 25 rue du Docteur Roux, 75724 Paris Cedex 15, France
J Gen Virol 82:1075-83. 2001..Thus, it could be suggested that the nature of the nucleotides as well as the stability of the secondary structure at the extremities of the viral RNA are important determinants of type-specificity...
- Semi-conservative DNA replication through telomeres requires Taz1Kyle M Miller
Telomere Biology Laboratory, Cancer Research UK, 44 Lincoln s Inn Fields, London WC2A 3PX, UK
Nature 440:824-8. 2006..Stalled forks at dysfunctional human telomeres are likely to accelerate the genomic instability that drives tumorigenesis...
- Visualizing RNA extrusion and DNA wrapping in transcription elongation complexes of bacterial and eukaryotic RNA polymerasesClaudio Rivetti
Department of Biochemistry and Molecular Biology, University of Parma, 43100, Parma, Italy
J Mol Biol 326:1413-26. 2003..DNA wrapping in the elongation complex suggests a possible mechanism by which the polymerase may overcome the physical barrier to transcription imposed by the nucleosomes...
- A conserved insertion in protein-primed DNA polymerases is involved in primer terminus stabilisationEmmanuelle Dufour
Centro de Biologia Molecular Severo Ochoa CSIC UAM, Instituto de Biología Molecular Eladio Viñuela CSIC, Universidad Autonoma, Cantoblanco, 28049 Madrid, Spain
J Mol Biol 331:781-94. 2003..The possible role of the TPR-1 insertion in the set of interactions with the nascent chain during the first steps of TP-DNA replication is discussed...
- Evidence for activation of the hepatitis B virus polymerase by binding of its RNA templateJ E Tavis
Department of Molecular Microbiology and Immunology, St Louis University School of Medicine, Missouri 63104, USA
J Virol 70:5741-50. 1996....
- Template-directed synthesis of a genetic polymer in a model protocellSheref S Mansy
Howard Hughes Medical Institute, Department of Molecular Biology and the Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, Massachusetts 02114, USA
Nature 454:122-5. 2008....
- Substituent effects on the pairing and polymerase recognition of simple unnatural base pairsGil Tae Hwang
Department of Chemistry, The Scripps Research Institute, 10550 N Torrey Pines Road, La Jolla, CA 92037, USA
Nucleic Acids Res 34:2037-45. 2006..The results help identify the determinants of base pair stability and efficient replication and should contribute to the effort to develop stable and replicable unnatural base pairs...
- DNA elongation by the human DNA polymerase lambda polymerase and terminal transferase activities are differentially coordinated by proliferating cell nuclear antigen and replication protein AGiovanni Maga
Istituto di Genetica Molecolare, Consiglio Nazionale delle Ricerche, via Abbiategrasso 207, I 27100 Pavia, Italy
J Biol Chem 280:1971-81. 2005....
- Kinetics of deoxyribonucleotide insertion and extension at abasic template lesions in different sequence contexts using HIV-1 reverse transcriptaseH Cai
Department of Biological Sciences, University of Southern California, Los Angeles 90089 1340
J Biol Chem 268:23567-72. 1993..A striking result was that while primers were extended past an abasic lesion by HIV-1 RT in both direct and misalignment modes, avian myeloblastosis virus RT failed to catalyze significant extension by either mode...
- Blocking transcription through a nucleosome with synthetic DNA ligandsJoel M Gottesfeld
Department of Molecular Biology, Scripps Research Institute, La Jolla, CA 92037, USA
J Mol Biol 321:249-63. 2002..These results establish unambiguously the requirement for octamer mobility for transcription of nucleosomal templates by T7 RNA polymerase...
- Varied DNA polymerase-substrate interactions in the nucleotide binding pocketMichael Strerath
Kekule Institut fur Organische Chemie und Biochemie, Universitat Bonn, Gerhard Domagk Strasse 1, 53121 Bonn, Germany
Chembiochem 3:578-80. 2002
- RNA displacement and resolution of the transcription bubble during transcription by T7 RNA polymeraseManli Jiang
Morse Institute of Molecular Genetics, Department of Microbiology and Immunology, SUNY Health Science Center at Brooklyn, 450 Clarkson Avenue, Brooklyn, NY 11203, USA
Mol Cell 15:777-88. 2004..The results indicate that the transition is a multistep process and reveal a critical role for the nontemplate strand of the DNA...
- Reconstitution of a minimal mtDNA replisome in vitroJenny A Korhonen
Department of Medical Nutrition, Karolinska Institute, Novum, Huddinge, Sweden
EMBO J 23:2423-9. 2004..The functional interactions between TWINKLE and POLgamma thus explain why mutations in these two proteins cause an identical syndrome...
- Efforts to expand the genetic alphabet: identification of a replicable unnatural DNA self-pairAllison A Henry
Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
J Am Chem Soc 126:6923-31. 2004..The most promising unnatural base pair candidate of this series is the 3-fluorobenzene self-pair, which is replicated with reasonable efficiency and selectivity...
- Significance of nucleobase shape complementarity and hydrogen bonding in the formation and stability of the closed polymerase-DNA complexL Dzantiev
Department of Chemistry, Wayne State University, Detroit, Michigan 48202, USA
Biochemistry 40:3215-21. 2001..Finally, a stable closed complex is not formed in the presence of a ddNTP or rNTP. These results are discussed in relation to the steric exclusion model for the nucleotide insertion...
- DNA polymerase template interactions probed by degenerate isosteric nucleobase analogsNatasha Paul
Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, IN 47907, USA
Chem Biol 10:815-25. 2003..These azole nucleobase analogs offer unique molecular tools for probing nonbonded interactions dictating substrate selection and fidelity of DNA polymerases...
- Recognition by viral and cellular DNA polymerases of nucleosides bearing bases with nonstandard hydrogen bonding patternsJ Horlacher
Bio Organische Chemie, Eidgenössiche Technische Hochschule Zurich, Switzerland
Proc Natl Acad Sci U S A 92:6329-33. 1995..These results are discussed in light of the crystal structure for pol beta and general considerations of how polymerases must interact with an incoming base pair to faithfully copy genetic information...
- Rescue of stalled replication forks by RecG: simultaneous translocation on the leading and lagging strand templates supports an active DNA unwinding model of fork reversal and Holliday junction formationP McGlynn
Institute of Genetics, University of Nottingham, Queen's Medical Centre, Nottingham NG7 2UH, United Kingdom
Proc Natl Acad Sci U S A 98:8227-34. 2001....
- End-bridging is required for pol mu to efficiently promote repair of noncomplementary ends by nonhomologous end joiningBryan J Davis
Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, NC 27599, USA
Nucleic Acids Res 36:3085-94. 2008..Taken together, pol mu activity during NHEJ of noncomplementary ends can thus be primarily linked to pol mu's ability to work together with core NHEJ factors to bridge DNA ends and perform a template-dependent gap fill-in reaction...
- Secondary structure of vertebrate telomerase RNAJ L Chen
Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA
Cell 100:503-14. 2000..The proposed vertebrate telomerase RNA structure displays a strikingly similar topology to the previously determined ciliate telomerase RNA structure, implying an evolutionary conservation of the global architecture of telomerase RNA...
- Fidelity of DNA ligation: a novel experimental approach based on the polymerisation of libraries of oligonucleotidesJ N Housby
Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK
Nucleic Acids Res 26:4259-66. 1998..We suggest that sequence selection was imposed by the ligase and not just by base pairing interactions. The ligase directs polymerisation in the 3' to 5' direction which we propose is linked to its role in lagging strand DNA replication...
- Replication by human DNA polymerase-iota occurs by Hoogsteen base-pairingDeepak T Nair
Structural Biology Program, Department of Physiology and Biophysics, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, New York 10029, USA
Nature 430:377-80. 2004....
- De novo initiation of RNA synthesis by hepatitis C virus nonstructural protein 5B polymeraseW Zhong
Department of Antiviral Therapy, Schering Plough Research Institute, Kenilworth, New Jersey 07033 0539, USA
J Virol 74:2017-22. 2000..Identification and characterization of the de novo priming or initiation activity by HCV NS5B provides an opportunity to screen for inhibitors that specifically target the initiation step...
- Structural basis of transcription initiation: an RNA polymerase holoenzyme-DNA complexKatsuhiko S Murakami
The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
Science 296:1285-90. 2002..The structure explains how holoenzyme recognizes promoters containing variably spaced -10 and -35 elements and provides the basis for models of the closed and open promoter complexes...
- Replication of a cis-syn thymine dimer at atomic resolutionHong Ling
Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA
Nature 424:1083-7. 2003..A model of the pol eta-CPD complex built from the crystal structures of Saccharomyces cerevisiae apo-pol eta and the Dpo4-CPD complex suggests unique features that allow pol eta to efficiently bypass CPDs...
- Cooperation between RNA polymerase molecules in transcription elongationVitaly Epshtein
Department of Biochemistry, New York University Medical Center, New York, NY 10016, USA
Science 300:801-5. 2003..Such cooperation between RNAP molecules links the rate of elongation to the rate of initiation and explains why elongation is still fast and processive in vivo even without anti-arrest factors...
- Nonreplicative homologous RNA recombination: promiscuous joining of RNA pieces?Anatoly P Gmyl
M P Chumakov Institute of Poliomyelitis and Viral Encephalitides, Russian Academy of Medical Sciences, Moscow 142782, Russia
RNA 9:1221-31. 2003....
- Caught bending the A-rule: crystal structures of translesion DNA synthesis with a non-natural nucleotideKarl E Zahn
Department of Microbiology and Molecular Genetics, University of Vermont, Burlington, Vermont 05405, USA
Biochemistry 46:10551-61. 2007....
- Cross-linking of the fingers subdomain of human immunodeficiency virus type 1 reverse transcriptase to template-primerE N Peletskaya
ABL-Basic Research Program, National Cancer Institute at Frederick, National Institutes of Health, Frederick, Maryland 21702-1201, USA
J Virol 75:9435-45. 2001..This experimental approach can be used to measure distances between any site on the surface of the protein and an interacting molecule...
- Human DNA polymerase lambda possesses terminal deoxyribonucleotidyl transferase activity and can elongate RNA primers: implications for novel functionsKristijan Ramadan
Institute of Veterinary Biochemistry and Molecular Biology, University of Zurich Irchel, Winterthurerstrasse 190, CH 8057 Zurich, Switzerland
J Mol Biol 328:63-72. 2003..These two novel properties of human DNA polymerase lambda might suggest additional roles for this enzyme in DNA replication and repair processes...
- Substitution of conserved hydrophobic residues in motifs B and C of HIV-1 RT alters the geometry of its catalytic pocketBechan Sharma
Department of Biochemistry and Molecular Biology, Center for the Study of Emerging and Re Emerging Pathogens, University of Medicine and Dentistry of New Jersey, New Jersey Medical School, 185 South Orange Avenue, Newark, NJ 07103, USA
Biochemistry 41:15685-97. 2002....
- Mechanism of loading the Escherichia coli DNA polymerase III beta sliding clamp on DNA. Bona fide primer/templates preferentially trigger the gamma complex to hydrolyze ATP and load the clampBrandon Ason
Department of Biochemistry and Molecular Biology, University of Florida, Gainesville 32610 0245, USA
J Biol Chem 278:10033-40. 2003....
- Structural basis of transcription: an RNA polymerase II-TFIIB cocrystal at 4.5 AngstromsDavid A Bushnell
Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305 5126, USA
Science 303:983-8. 2004..The trajectory of promoter DNA determined by the C-terminal domain of TFIIB traverses sites of interaction with TFIIE, TFIIF, and TFIIH, serving to define their roles in the transcription initiation process...
- Minimal machinery of RNA polymerase holoenzyme sufficient for promoter meltingBrian A Young
Departments of Stomatology and Microbiology and Immunology, University of California, San Francisco, San Francisco, CA 94143, USA
Science 303:1382-4. 2004..Our results support the model that capture of nontemplate bases extruded from the DNA helix underlies the melting process...
- ATP interactions of the tau and gamma subunits of DNA polymerase III holoenzyme of Escherichia coliZ Tsuchihashi
Department of Biochemistry, Stanford University School of Medicine, California 94305
J Biol Chem 264:17790-5. 1989....
- Comparison of HIV-1 and avian myeloblastosis virus reverse transcriptase fidelity on RNA and DNA templatesH Yu
Department of Biological Sciences, University of Southern California, Los Angeles 90089 1340
J Biol Chem 267:10888-96. 1992....
- Construction and purification of site-specifically modified DNA templates for transcription assaysRebecca A Perlow
Department of Biology, New York University, 100 Washington Square East, New York, NY 10003, USA
Nucleic Acids Res 31:e40. 2003..Data are supplied demonstrating that these templates support transcription, and we emphasize the potential versatility of the protocol and compare it with other published methods...
- Human immunodeficiency virus type 1 genetic recombination is more frequent than that of Moloney murine leukemia virus despite similar template switching ratesAdewunmi Onafuwa
Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, Michigan 48109 0620, USA
J Virol 77:4577-87. 2003....
- Nontemplated terminal nucleotidyltransferase activity of double-stranded RNA bacteriophage phi6 RNA-dependent RNA polymeraseMinna M Poranen
Institute of Biotechnology and Department of Biological and Environmental Sciences, P O Box 56 Viikinkaari 5, 00014 University of Helsinki, Finland
J Virol 82:9254-64. 2008..We propose that the activity is involved in the termination of the template-dependent RNA polymerization reaction on the linear phi6 genome...
- WHOLE ANIMAL APOPTOSIS ASSAY FOR CANCER DRUG SCREENINGGeorge Serbedzija; Fiscal Year: 2000Cellular apoptotic pathways prevent the propagation of inappropriate cell numbers, cell fates or faulty genetic templates which are implicated in cancer, neurodegeneration, autoimmunity, heart and renal disease...
- Effects of Formamidopyrimidine Lesions on DNAMarc Greenberg; Fiscal Year: 2006..abstract_text> ..
- Instrumentation for Peptide Synthesis FacilityKATHRYN IVANETICH; Fiscal Year: 2003..The requested instrumentation would be a truly shared resource. No single investigator, group of investigators or department would dominate its use. ..
- DNA replication, DNA repair and microsatellite stabilityKristin Eckert; Fiscal Year: 2009..Microsatellite allele lengths can directly affect gene expression. As microsatellites are polymorphic in human populations, this effect on gene regulation may be an important factor contributing to individual cancer risk. ..
- Quantitative Real Time PCR InstrumentationKATHRYN IVANETICH; Fiscal Year: 2002..The requested instrumentation would be a truly shared resource. No single investigator, group of investigators or department would dominate its use. ..
- Mechanisms of Avian Hepadnavirus ReplicationDANIEL LOEB; Fiscal Year: 2008..unreadable] [unreadable] [unreadable]..
- MUTATIONAL MECHANISMS OF REPETITIVE DNA IN HUMAN CELLSKristin Eckert; Fiscal Year: 2001..Our long-term research objective is to test the hypothesis that mutations in repetitive DNA provide an important source of genotypic variation that drives neoplastic progression. ..
- NUCLEIC ACID SEQUENCE ANALYSISKATHRYN IVANETICH; Fiscal Year: 2001..The PIs represent 19 UCSF departments. The requested instruments would be truly shared resources. No single investigator, group of investigators or department would dominate their use. ..
- Dissecting the mechanism of viral RNA recombinationPeter Nagy; Fiscal Year: 2004..Knowledge of recombination promises untold health benefits by providing means to limit virus infections and safer vaccines. ..
- Histone Deacetylase Inhibitors as Therapeutics for Friedreich's ataxiaJOEL GOTTESFELD; Fiscal Year: 2007..We are developing small molecules to reverse this effect, with the hope that these molecules may be therapeutic for FRDA. [unreadable] [unreadable] [unreadable]..
- Defects of Thymic Output in Wiskott-Aldrich SyndromeEILEEN REMOLD O DONNELL; Fiscal Year: 2006....
- CELL CULTURE-BASED STUDIES OF HCV PATHOGENESISMichael Lai; Fiscal Year: 2007..These include iNOS induction, double-strand DNA breaks, and induction of error-prone DNA polymerases. The possible involvement of extracellular E2 protein in causing these effects will also be examined. ..
- MRI contrast agents targeting carbohydrate biomarkersBinghe Wang; Fiscal Year: 2007..unreadable] [unreadable] [unreadable]..
- Algorithms to Map Disease & Genetic Effects on the BrainPaul Thompson; Fiscal Year: 2005..Validated on unique datasets, these tools will greatly empower biomedical studies that bridge imaging and genetics. They will help investigate the genetic transmission, triggers, and dynamics of disease in whole human populations. ..
- CREATING MUTANT ENZYMES FOR GENE THERAPY OF CANCERLAWRENCE LOEB; Fiscal Year: 2007..abstract_text> ..
- Synthetic Antibodies by Monomolecular ImprintingSteven Zimmerman; Fiscal Year: 2007..Applications in medical diagnostics are the most likely early pay-off for this technology. ..
- Small molecule therapeutics for Friedreich's ataxiaJOEL GOTTESFELD; Fiscal Year: 2005..The effects of polyamides on cellular frataxin protein will be determined by western blotting, and the genome-wide effects of polyamide treatment will be assessed by DNA microarray analysis. ..
- ZFN-driven Gene Disruption of CCR5 as a Potential Treatment of AIDSFyodor Urnov; Fiscal Year: 2006..unreadable] [unreadable] [unreadable]..
- NUCLEASES IN DNA REPAIR AND RECOMBINATIONSUSAN LOVETT; Fiscal Year: 2006..We will extend genetic analysis of radC to determine what role it may play in repair and recombination. ..
- Host factors involved in viral RNA recombinationPeter Nagy; Fiscal Year: 2006..Knowledge of recombination promises untold health benefits by providing means to limit virus infections and to develop safer vaccines. ..
- MOLECULAR RECOGNITION OF ANTIPSYCHOTIC DRUGS AND COCAINEJONATHAN JAVITCH; Fiscal Year: 2006..abstract_text> ..
- REV DECOYS FOR GENE THERAPY AND DRUG DEVELOPMENTAndrew Ellington; Fiscal Year: 2004....
- Mechanism and Inhibition of Herpes ReplicationROBERT KUCHTA; Fiscal Year: 2002..Additionally, a number of novel nucleotides will be synthesized to provide a thorough understanding of how the enzyme interacts with the incoming NTP. ..
- Protein-Protein InteractionsDavid Baker; Fiscal Year: 2009....
- DNA REPAIR AND CANCER PRONE HEREDITARY HUMAN DISEASEErrol Friedberg; Fiscal Year: 2002....
- Bacterial cell cycle controlSUSAN THOMAS LOVETT; Fiscal Year: 2010..LAY DESCRIPTION: We will study a protein present in all bacteria that appears to control their growth. This will provide important missing information about how bacteria divide and may provide a target for antibiotics. ..
- HYPOTRICH GENOME IN DEVELOPMENT AND EVOLUTIONDavid Prescott; Fiscal Year: 2001..The experiments deal with the general problem of how an organism can manipulate its own DNA. ..
- Computational Modeling of High-Field MR ImagesPaul M Thompson; Fiscal Year: 2010..We will share all images, protocols, and algorithms with our network of 100+ collaborating laboratories. ..
- DNA-PROTEIN COMPLEX OF BACILLUS SUBTILITS PHAGE 029Margarita Salas; Fiscal Year: 2003..subtilis RNA polymerase at promoters A3 and A2c, the switch from early to late transcription in phage GA-1, and the mechanism of p6 repression at promoters C2 and A2c. ..
- DNA METHYLOME STUDY IN TYPE 1 DIABETESART PETRONIS; Fiscal Year: 2009..This effort may have a major impact on our understanding of autoimmune mechanisms in T1D and lead to new strategies in diagnostics and treatment of the disease. ..
- Gene Expression Analysis of Aplysia Neural NetworkJingyue Ju; Fiscal Year: 2009..The full-length cDNA libraries and the Aplysia microarray will provide important resources for investigators to study learning and other behavior paradigms in this important model organism. ..
- Genomic Approaches to Neuronal Diversity and PlasticityJingyue Ju; Fiscal Year: 2007..RESEARCH GRANT TABLE OF CONTENTS Page Numbers Face Page .................................................................................................................................................. 1 Description, ..
- Catalytic Mechanisms of RNA EzymesMartha J Fedor; Fiscal Year: 2010..The results of these studies also will provide a framework to guide the development of technical and therapeutic applications involving RNAs as targets and reagents. ..
- MOUSE MODELS OF DNA REPAIR - DEFECTIVE HUMAN DISEASESErrol Friedberg; Fiscal Year: 2011..abstract_text> ..
- Novel oncolytic adenovirus for pancreatic therapyBaek Kim; Fiscal Year: 2008..This application proposes to develop a novel gene therapy approach employing oncolytic adenovirus replicating specifically in cancer cells. [unreadable] [unreadable] [unreadable]..
- A High-Throughput Assay for Influenza Replicase/RNA Polymerase InhibitorsROBERT KUCHTA; Fiscal Year: 2006..unreadable] [unreadable]..
- CONFORMATIONAL VARIABILITY OF RNAJULI F FEIGON; Fiscal Year: 2010..Our structural studies will provide molecular insight into how non-coding RNAs are regulated for cell function. ..
- GnRH signaling in LbetaT2 gonadotrope cellsNicholas Webster; Fiscal Year: 2009..These genetic models will include cell-specific transgenic overexpression of selected co-repressors as well as gonadotrope-specific deletion of components of the Gs and Gq/11 pathways using cre-loxP technology. ..
- Modulating Nucleotide Size in DNA for Detection by NanoporeJingyue Ju; Fiscal Year: 2007..The molecular tools developed here will facilitate achieving the long-term goal of single molecule sequencing by nanopores at single base resolution. [unreadable] [unreadable]..
- DNA Sequencing with Reversible dNTP and Cleavable Fluorescent ddNTPTerminatorsJingyue Ju; Fiscal Year: 2009..We anticipate that up to 100 bp of continuous sequences will be produced by this approach, which can be used to pursue a variety of biomedical research projects. ..
- Fluorescent Aptamers for Glycoprotein DetectionBinghe Wang; Fiscal Year: 2006..Furthermore, the same technology, once developed, can also be used for the construction of fluorescent sensors for other cancer-related glycoproteins. ..
- MicroRNA Profiles of Pathogen InfectionAndrew Ellington; Fiscal Year: 2005..3. Apply these methods to the detection of changes in microRNA expression during influenza infection. 4. Apply these methods to the detection of changes in microRNA expression with other infectious agents. ..
- DENDRIMERS--POLYMERS FOR SELF ASSEMBLY AND DRUG DELIVERYSteven Zimmerman; Fiscal Year: 2001..The strategy involves the chemical cross-linking of a dendrimer surface, followed by the chemical cleavage of labile internal bonds to chemically excise the core. ..
- Frontiers in NMR: A Celebration of the UCLA MRRJuli Feigon; Fiscal Year: 2003..The Seaborg Event attracts a wide audience from southern California, as well as many alumni from out-of-state, and will thus showcase the new facility to an audience that extends beyond the magnetic resonance scientific community. ..
- Environmental Mutagen Society, 34th Annual MeetingLAWRENCE LOEB; Fiscal Year: 2003..Awards will be made to US speakers whose major area of interest is in carcinogenesis. ..
- PEPTIDE NUCLEIC ACIDS (PNA)-MEDIATED GENE EXPRESSIONGan Wang; Fiscal Year: 2003..To investigate parameters that affect PNA delivery efficiency and intracellular PNA binding. To explore the possibility of PNA binding-induced endogenous human gene expression. ..
- MOLECULAR EFFECTORS OF ENZYMATIC SYNTHESIS OF DNAMUKUND MODAK; Fiscal Year: 2003..The molecular mechanism and functional anatomy of DNA polymerase clarified in this manner will lead to a better understanding of DNA replication, DNA repair and mutagenic effects of chemicals and carcinogenesis. ..
- MOLECULAR INTERACTION IN T4 DNA REPLICATION COMPLEXPETER VON HIPPEL; Fiscal Year: 2003..abstract_text> ..
- OXYGEN INDUCED DNA DAMAGE, MUTATIONS AND CANCERLAWRENCE LOEB; Fiscal Year: 2003..Even a modest, 2-fold, decrease could increase the latent period before disease is manifested clinically and thus reduce cancer mortality. ..
- SOCIAL INFLUENCES ON CENTRAL ARGININE VASOTOCIN ACTIONSJohn Godwin; Fiscal Year: 2003..Direct influences of social environment on the expression and behavioral actions of AVT would have relevance to humans, where sexual and aggressive behaviors are also under environmental influences. ..
- REPLICATION OF HEPATITIS C VIRUS RNAMichael Lai; Fiscal Year: 2003..We will also characterize cellular proteins interacting with the polymerase. Finally we will study the effects of ns4b and ns5a on RNA synthesis in vivo. ..
- Site-specific incorporation of FRET pairs into intracellular proteinsAndrew Ellington; Fiscal Year: 2009..This will allow us to follow and track proteins in a cell, and to determine where, when, and how proteins reside next to one another, in either normal or malformed complexes. ..
- REPLICATION OF DAMAGED DNA IN HUMAN CELLSMarila Cordeiro Stone; Fiscal Year: 2004..This project will provide insight on how PRR and the S checkpoint cooperate to protect human cells from cancer. ..
- MOLECULAR GENETICS OF TUMOR VIRUSES AND CELLSCarol Greider; Fiscal Year: 2005..The majority of our students and postdoctoral trainees go on to careers in basic research relevant to cancer at high quality academic institutions or pharmaceutical/biotechnology organizations. ..
- 2004 & 2006 Membrane Transport Proteins Gordon ConferenceJONATHAN JAVITCH; Fiscal Year: 2005..In keeping with the GRC tradition, the interactions that will result, whether from formal or informal discussions, can be expected to be extraordinarily stimulating and productive. ..
- Ribozymes for Peptide- and Protein- Sensing Chip ArraysAndrew Ellington; Fiscal Year: 2004..1.-D.3), and (2)Adapting peptide and protein-activated aptazymes to function in chip arrays (D.4). ..
- PHARMACOGENETICS IN SURGICAL CRITICAL CAREBradley Freeman; Fiscal Year: 2004..The environment for this project is Washington University School of Medicine, an institution with access to a large clinical volume and established expertise in genomic research. ..
- Combinatorial Approaches to Activators of the NGF Recep*Nicholas Webster; Fiscal Year: 2005..The Specific Aim of this proposal is to screen the combinatorial asterriquinone library against the NGF receptor. ..
- LETHAL MUTAGENESIS OF HIV BY DEOXYNUCLEOSIDE ANALOGSLAWRENCE LOEB; Fiscal Year: 2002....
- STRUCTURE/FUNCTION STUDIES ON HUMAN TELOMERASEWILLIAM DROSOPOULOS; Fiscal Year: 2004..abstract_text> ..
- High-throughput Sequencing by PyrosequencingMostafa Ronaghi; Fiscal Year: 2006..unreadable] [unreadable] [unreadable]..
- Mechanisms contributing to frataxin deficiencyEDWARD GRABCZYK; Fiscal Year: 2009..The novel reporter constructs we developed to dissect the underlying causes of frataxin insufficiency will also serve as high throughput cell-based assays for candidate therapies. ..
- NON-H-2 HISTOCOMPATIBILITY GENES AND ENCODED ANTIGENSPeter Wettstein; Fiscal Year: 2002....
- Aberrant DNA Methylation as a Biomarker of HSIL in Liquid-based Pap TestsKAREN GUSTAFSON; Fiscal Year: 2007..unreadable] [unreadable] [unreadable]..
- Large-scale sequencing and assembly of the rat genomeRobert Holt; Fiscal Year: 2002....
- The Role of Telomeres and Telomerase in CancerJerry Shay; Fiscal Year: 2005..abstract_text> ..
- GROWTH-RELATED CHANGES IN YEAST CTD PHOSPHORYLATIONJEFFRY CORDEN; Fiscal Year: 2003..Understanding such pathways and how they may modulate CTD phosphorylation in yeast will field further insight into the transition between growth and non- proliferative states of cells in multicellular organisms. ..
- Controlling DNA Condensation In VitroNicholas Hud; Fiscal Year: 2005..Dr. Hud's results will have direct implications on the feasibility of using static DNA structures in the development of nonviral gene delivery systems. ..
- Role of AMPK in hypoglycemia-sensing in the ventromedial hypothalamusRORY MCCRIMMON; Fiscal Year: 2008..Finally, the proposal aims to obtain data that will support the hypothesis that recurrent hypoglycemia induces mitochondrial biogenesis in the VMH, an effect that may be mediated by AMPK. ..
- In Vivo Antiviral Activity of SaponinsMICHAEL RONER; Fiscal Year: 2007..The extract is well suited to such an application as it is pH stable, is already approved as a food additive, is inexpensive, readily available and is soluble in water. [unreadable] [unreadable] [unreadable]..
- Structure and function of SRP RNAChristian Zwieb; Fiscal Year: 2006..These studies will focus on the specific features of two critical interactions and define their dynamic relationship to SRP function. [unreadable] [unreadable]..
- HUMAN V(D)J RECOMBINASE IN NEOPLASTIC AND PRIMARY CELLSMichael Lieber; Fiscal Year: 2004..Corresponding studies of such regions on minichromosomes will permit the testing of the effects of the direction of DNA replication and transcription. ..