electrophoretic mobility shift assay

Summary

Summary: An electrophoretic technique employed to assay for binding of one compound to another. Typically one compound is labeled to follow its mobility during electrophoresis. The movement of the labeled compound through the electrophoretic medium will be retarded if it is bound by the other.

Top Publications

  1. pmc Persistently activated Stat3 maintains constitutive NF-kappaB activity in tumors
    Heehyoung Lee
    Beckman Research Institute, City of Hope National Medical Center, Duarte, CA 91010, USA
    Cancer Cell 15:283-93. 2009
  2. ncbi The IkappaB-NF-kappaB signaling module: temporal control and selective gene activation
    Alexander Hoffmann
    Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA
    Science 298:1241-5. 2002
  3. pmc Oxidative damage to methyl-CpG sequences inhibits the binding of the methyl-CpG binding domain (MBD) of methyl-CpG binding protein 2 (MeCP2)
    Victoria Valinluck
    Department of Biochemistry and Microbiology, School of Medicine, Loma Linda University, Loma Linda, CA 92350, USA
    Nucleic Acids Res 32:4100-8. 2004
  4. pmc Electrophoretic mobility shift assay (EMSA) for detecting protein-nucleic acid interactions
    Lance M Hellman
    Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, Kentucky 40536 0509, USA
    Nat Protoc 2:1849-61. 2007
  5. ncbi Potential contribution of nuclear factor-kappaB to cerebral vasospasm after experimental subarachnoid hemorrhage in rabbits
    Meng Liang Zhou
    Department of Neurosurgery, Jinling Hospital, School of Medicine, Nanjing University, Nanjing, Jiangsu Province, China
    J Cereb Blood Flow Metab 27:1583-92. 2007
  6. ncbi MRI-visible polymeric vector bearing CD3 single chain antibody for gene delivery to T cells for immunosuppression
    Guihua Chen
    Liver Transplantation Center, The Third Affiliated Hospital, Sun Yat Sen University, Guangzhou 510630, China
    Biomaterials 30:1962-70. 2009
  7. ncbi Enhancement of efficiencies of the cellular uptake and gene silencing of chitosan/siRNA complexes via the inclusion of a negatively charged poly(γ-glutamic acid)
    Zi Xian Liao
    Department of Chemical Engineering, National Tsing Hua University, Hsinchu 30013, Taiwan, ROC
    Biomaterials 31:8780-8. 2010
  8. ncbi LeuO antagonizes H-NS and StpA-dependent repression in Salmonella enterica ompS1
    Miguel Angel De la Cruz
    Departamento de Microbiologia Molecular, Instituto de Biotecnologia, Universidad Nacional Autonoma de Mexico, Cuernavaca, Morelos, 62260 México
    Mol Microbiol 66:727-43. 2007
  9. pmc A homeostatic model of IkappaB metabolism to control constitutive NF-kappaB activity
    Ellen L O'Dea
    Signaling Systems Laboratory, Department of Chemistry and Biochemistry, UCSD, La Jolla, CA 92037, USA
    Mol Syst Biol 3:111. 2007
  10. pmc A novel nucleoid protein of Escherichia coli induced under anaerobiotic growth conditions
    Jun Teramoto
    Department of Frontier Bioscience, Hosei University, Koganei, Tokyo 184 8584, Japan
    Nucleic Acids Res 38:3605-18. 2010

Detail Information

Publications295 found, 100 shown here

  1. pmc Persistently activated Stat3 maintains constitutive NF-kappaB activity in tumors
    Heehyoung Lee
    Beckman Research Institute, City of Hope National Medical Center, Duarte, CA 91010, USA
    Cancer Cell 15:283-93. 2009
    ..Both murine and human cancers display highly acetylated RelA, which is associated with Stat3 activity. This Stat3/NF-kappaB interaction is thus central to both the transformed and nontransformed elements in tumors...
  2. ncbi The IkappaB-NF-kappaB signaling module: temporal control and selective gene activation
    Alexander Hoffmann
    Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA
    Science 298:1241-5. 2002
    ..Bimodal signal-processing characteristics with respect to stimulus duration are revealed by the model and are shown to generate specificity in gene expression...
  3. pmc Oxidative damage to methyl-CpG sequences inhibits the binding of the methyl-CpG binding domain (MBD) of methyl-CpG binding protein 2 (MeCP2)
    Victoria Valinluck
    Department of Biochemistry and Microbiology, School of Medicine, Loma Linda University, Loma Linda, CA 92350, USA
    Nucleic Acids Res 32:4100-8. 2004
    ..Oxidative damage to DNA could therefore result in heritable, epigenetic changes in chromatin organization...
  4. pmc Electrophoretic mobility shift assay (EMSA) for detecting protein-nucleic acid interactions
    Lance M Hellman
    Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, Kentucky 40536 0509, USA
    Nat Protoc 2:1849-61. 2007
    ..A representative protocol is provided and commonly used variants are discussed. Expected outcomes are briefly described. References to extensions of the method and a troubleshooting guide are provided...
  5. ncbi Potential contribution of nuclear factor-kappaB to cerebral vasospasm after experimental subarachnoid hemorrhage in rabbits
    Meng Liang Zhou
    Department of Neurosurgery, Jinling Hospital, School of Medicine, Nanjing University, Nanjing, Jiangsu Province, China
    J Cereb Blood Flow Metab 27:1583-92. 2007
    ..Our results suggest that NF-kappaB is activated in the arterial wall after SAH, which potentially leads to vasospasm development through induction of inflammatory response...
  6. ncbi MRI-visible polymeric vector bearing CD3 single chain antibody for gene delivery to T cells for immunosuppression
    Guihua Chen
    Liver Transplantation Center, The Third Affiliated Hospital, Sun Yat Sen University, Guangzhou 510630, China
    Biomaterials 30:1962-70. 2009
    ....
  7. ncbi Enhancement of efficiencies of the cellular uptake and gene silencing of chitosan/siRNA complexes via the inclusion of a negatively charged poly(γ-glutamic acid)
    Zi Xian Liao
    Department of Chemical Engineering, National Tsing Hua University, Hsinchu 30013, Taiwan, ROC
    Biomaterials 31:8780-8. 2010
    ..The aforementioned results suggest that CS/siRNA/γ-PGA complexes can be an efficient vector for siRNA transfection...
  8. ncbi LeuO antagonizes H-NS and StpA-dependent repression in Salmonella enterica ompS1
    Miguel Angel De la Cruz
    Departamento de Microbiologia Molecular, Instituto de Biotecnologia, Universidad Nacional Autonoma de Mexico, Cuernavaca, Morelos, 62260 México
    Mol Microbiol 66:727-43. 2007
    ..LeuO bound upstream of the regulatory region of ompS1 overlapping with one nucleation site of H-NS and StpA. Our results are thus consistent with a model where H-NS binds at a nucleation site and LeuO displaces H-NS and StpA...
  9. pmc A homeostatic model of IkappaB metabolism to control constitutive NF-kappaB activity
    Ellen L O'Dea
    Signaling Systems Laboratory, Department of Chemistry and Biochemistry, UCSD, La Jolla, CA 92037, USA
    Mol Syst Biol 3:111. 2007
    ....
  10. pmc A novel nucleoid protein of Escherichia coli induced under anaerobiotic growth conditions
    Jun Teramoto
    Department of Frontier Bioscience, Hosei University, Koganei, Tokyo 184 8584, Japan
    Nucleic Acids Res 38:3605-18. 2010
    ..We then propose that YgiP is a novel nucleoid protein of E. coli under anaerobiosis and propose to rename it Dan (DNA-binding protein under anaerobic conditions)...
  11. pmc Structural determinants of TAR RNA-DNA annealing in the absence and presence of HIV-1 nucleocapsid protein
    Igor Kanevsky
    LBPA, ENS de Cachan, CNRS, 61 Avenue du President Wilson, 94235 Cachan, France
    Nucleic Acids Res 39:8148-62. 2011
    ..NC slightly destabilizes the lower stem that is adjacent to the internal loop and shifts the equilibrium toward the 'Y' conformation exhibiting at least 12 unpaired nucleotides in its lower part...
  12. ncbi N-(4-hydroxyphenyl)retinamide inhibits breast cancer cell invasion through suppressing NF-KB activation and inhibiting matrix metalloproteinase-9 expression
    Hyereen Kang
    Department of Medicine, Graduate School, University of Ulsan, Pungnap 2 dong, Songpa Gu, Seoul, South Korea
    J Cell Biochem 113:2845-55. 2012
    ..Thus, 4-HPR might be a potent anti-invasive agent that works by suppressing MMP-9 expression via the NF-κB signaling pathway...
  13. ncbi Principles and problems of the electrophoretic mobility shift assay
    Neil S Holden
    Department of Cell Biology and Anatomy, Airway Inflammation Research Group, Faculty of Medicine, University of Calgary, Calgary, Alberta, Canada
    J Pharmacol Toxicol Methods 63:7-14. 2011
    The electrophoretic mobility shift assay (EMSA) is classically used to detect DNA binding proteins, the tenet of the EMSA is that DNA with protein bound, migrates through a polyacrylamide gel more slowly than the corresponding free ..
  14. ncbi A universal code for RNA recognition by PUF proteins
    Aleksandra Filipovska
    Western Australian Institute for Medical Research and Centre for Medical Research, The University of Western Australia, Perth, Australia
    Nat Chem Biol 7:425-7. 2011
    ..These repeat sequences can be used to create PUF domains capable of selectively binding RNA targets of diverse sequence and structure...
  15. pmc Biscarbamate cross-linked polyethylenimine derivative with low molecular weight, low cytotoxicity, and high efficiency for gene delivery
    Yu Qiang Wang
    Department of Geriatrics, Shanghai Ninth People s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, People s Republic of China
    Int J Nanomedicine 7:693-704. 2012
    ..Therefore, our results indicated that the PEI-Et would be a promising candidate for safe and efficient gene delivery in gene therapy...
  16. pmc Fra-1 governs cell migration via modulation of CD44 expression in human mesotheliomas
    Maria E Ramos-Nino
    Department of Pathology, University of Vermont College of Medicine, Burlington VT 05405, USA
    Mol Cancer 6:81. 2007
    ..These results suggest that Fra-1 is associated with cell migration in human MMs and that Fra-1 modulation of CD44 may govern migration of selected MMs...
  17. pmc Plasmid-encapsulated polyethylene glycol-grafted polyethylenimine nanoparticles for gene delivery into rat mesenchymal stem cells
    Xiao Ai Chen
    Department of Pathophysiology, Zhongshan School of Medicine, Sun Yat Sen University, Guangzhou, China
    Int J Nanomedicine 6:843-53. 2011
    ..Polyethylene glycol-grafted polyethylenimine (PEG-PEI) holds promise in gene delivery because of easy preparation and potentially targeting modification...
  18. pmc Association and regulation of heat shock transcription factor 4b with both extracellular signal-regulated kinase mitogen-activated protein kinase and dual-specificity tyrosine phosphatase DUSP26
    Yanzhong Hu
    Molecular Chaperone Biology Radiobiology Program, Medical College of Georgia, 1120 15th Street, CB2803, Augusta, GA 30912, USA
    Mol Cell Biol 26:3282-94. 2006
    ..Therefore, DUSP26 interaction with Hsf4b places this transcription factor within a regulatory circuit in the MAP kinase signaling pathway...
  19. pmc HMBG1 mediates ischemia-reperfusion injury by TRIF-adaptor independent Toll-like receptor 4 signaling
    Qing wu Yang
    Department of Neurology, Daping Hospital, The Third Military Medical University, Yuzhong District, Chongqing, China
    J Cereb Blood Flow Metab 31:593-605. 2011
    ..These results suggest that HMBG1 mediates ischemia-reperfusion injury by TRIF-adaptor independent Toll-like receptor 4 signaling. The TLR4 expressed by immigrant macrophages may be involved in the development of ischemic brain damage...
  20. pmc Egr-1 inhibits the expression of extracellular matrix genes in chondrocytes by TNFalpha-induced MEK/ERK signalling
    Jason S Rockel
    Canadian Institutes of Health Research Group in Skeletal Development and Remodeling, Schulich School of Medicine and Dentistry, The University of Western Ontario, London, Ontario N6A5C1, Canada
    Arthritis Res Ther 11:R8. 2009
    ..TNFalpha activates mitogen-activated kinase kinase (MEK)/extracellular regulated kinase (ERK) in chondrocytes; however, the overall functional relevance of MEK/ERK to TNFalpha-regulated gene expression in chondrocytes is unknown...
  21. ncbi Taurine chloramine induces heme oxygenase-1 expression via Nrf2 activation in murine macrophages
    Chaekyun Kim
    Laboratory for Leukocyte Signaling Research, Inha University School of Medicine, Incheon 400 712, Republic of Korea
    Int Immunopharmacol 10:440-6. 2010
    ..Thus, TauCl-derived elevation of HO activity may play an essential role in the adaptive cytoprotection of inflammatory tissues...
  22. ncbi The RovA regulons of Yersinia enterocolitica and Yersinia pestis are distinct: evidence that many RovA-regulated genes were acquired more recently than the core genome
    Jason S Cathelyn
    Department of Molecular Microbiology, Washington University School of Medicine, 660 S Euclid Ave, Saint Louis, MO 63110, USA
    Mol Microbiol 66:189-205. 2007
    ..This repression can be selectively relieved by regulators such as RovA, and the observation that nearly all RovA-activated genes are repressed by H-NS is consistent with this model...
  23. ncbi Phosphorylation of the RitR DNA-binding domain by a Ser-Thr phosphokinase: implications for global gene regulation in the streptococci
    Andrew T Ulijasz
    Department of Pharmacology, University of Wisconsin School of Medicine and Public Health, 1300 University Avenue, Madison, WI 53706, USA
    Mol Microbiol 71:382-90. 2009
    ..Our findings indicate a regulatory link between RitR and Ser-Thr kinase-phosphatase-based bacterial signal transduction...
  24. ncbi MutSalpha binds to and promotes synapsis of transcriptionally activated immunoglobulin switch regions
    Erik D Larson
    Department of Immunology, Molecular and Cellular Biology Graduate Program, University of Washington School of Medicine, 1959 N E Pacific Street, Box 357650, Seattle, WA 98195, USA
    Curr Biol 15:470-4. 2005
    ..G mismatches, initial products of DNA deamination by AID. These results suggest that MutSalpha interacts with the S regions in switching B cells to promote DNA synapsis and recombination...
  25. ncbi SoxS regulates the expression of the Salmonella enterica serovar Typhimurium ompW gene
    F Gil
    Laboratorio de Microbiologia Molecular, Departamento de Ciencias Biologicas, Universidad Andres Bello, Santiago, Chile
    Microbiology 155:2490-7. 2009
    ..Transcriptional fusions support the relevance of this region in ompW activation. The SoxS site is in the forward orientation and its location suggests that the ompW gene has a class I SoxS-dependent promoter...
  26. ncbi Melatonin inhibits the expression of the inducible isoform of nitric oxide synthase and nuclear factor kappa B activation in rat skeletal muscle
    Maria Alonso
    Department of Physiology, University of Leon, Leon, Spain
    J Pineal Res 41:8-14. 2006
    ..These findings support the view that melatonin treatment, by abolishing the IKK/NF-kappaB signal transduction pathway, might block the production of noxious mediators involved in the inflammatory process...
  27. pmc Structural study of TcaR and its complexes with multiple antibiotics from Staphylococcus epidermidis
    Yu Ming Chang
    Institute of Biochemical Sciences, National Taiwan University, Taipei 106, Taiwan
    Proc Natl Acad Sci U S A 107:8617-22. 2010
    ..The results support a general mechanism for antibiotics in regulating TcaR-DNA interaction and thereby help understand the effect of antibiotic exposure on bacterial antibiotic resistance through biofilm formation...
  28. pmc NF-kappaB regulates spatial memory formation and synaptic plasticity through protein kinase A/CREB signaling
    Barbara Kaltschmidt
    Universitat Witten Herdecke, Institut fur Neurobiochemie, Stockumer Strasse 10, D 58448 Witten, Germany
    Mol Cell Biol 26:2936-46. 2006
    ....
  29. pmc Egr-1 regulates expression of the glial scar component phosphacan in astrocytes after experimental stroke
    Heike Beck
    Institute for Clinical Molecular Biology and Tumor Genetics, German Research Center for Environmental Health, Helmholtz Center Munich, Munich, Germany
    Am J Pathol 173:77-92. 2008
    ..Our findings suggest that Egr-1 is an important component of the transcriptional network regulating genes involved in gliosis after ischemic injury...
  30. ncbi Expression and transcriptional regulation of Munc18 isoforms in mast cells
    Rupesh Nigam
    Department of Internal Medicine, Baylor College of Medicine, Houston, TX 77030, USA
    Biochim Biophys Acta 1728:77-83. 2005
    ..Thus, mast cells upregulate an essential component of their exocytic machinery as they develop morphologic and functional features of the regulated secretory phenotype...
  31. pmc The BatR/BatS two-component regulatory system controls the adaptive response of Bartonella henselae during human endothelial cell infection
    Maxime Quebatte
    Focal Area Infection Biology, Biozentrum, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    J Bacteriol 192:3352-67. 2010
    ....
  32. pmc RDE-4 preferentially binds long dsRNA and its dimerization is necessary for cleavage of dsRNA to siRNA
    Greg S Parker
    Department of Biochemistry HHMI, University of Utah, Salt Lake City 84112 5650, USA
    RNA 12:807-18. 2006
    ..Using extracts from wild-type and rde-4 mutant C. elegans, we show that the C-terminal dimerization domain is required for the production of siRNA. Our findings suggest a model for RDE-4 function during the initiation of RNAi...
  33. pmc Methylation-dependent binding of the epstein-barr virus BZLF1 protein to viral promoters
    Sarah J Dickerson
    McArdle Laboratory, Departments of Oncology and Medicine, University of Wisconsin School of Medicine and Public Health, Madison, Wisconsin, USA
    PLoS Pathog 5:e1000356. 2009
    ..Conversely, since the incoming viral genome is initially unmethylated, methylation-dependent Z activation may also help the virus to establish latency following infection...
  34. ncbi NF-kappaB represses E-cadherin expression and enhances epithelial to mesenchymal transition of mammary epithelial cells: potential involvement of ZEB-1 and ZEB-2
    H L Chua
    Department of Surgery, Indiana University School of Medicine, Indianapolis, IN, USA
    Oncogene 26:711-24. 2007
    ..MCF10A cells chronically exposed to tumor necrosis factor alpha (TNFalpha), a potent NF-kappaB inducer, also exhibited the EMT-like phenotype and ZEB-1/ZEB-2 induction, both of which were reversed following TNFalpha withdrawal...
  35. pmc Induction of proteasome expression in skeletal muscle is attenuated by inhibitors of NF-kappaB activation
    S M Wyke
    Pharmaceutical Sciences Research Institute, Aston University, Birmingham B4 7ET, UK
    Br J Cancer 91:1742-50. 2004
    ..The inactivity of curcumin was probably due to a low bioavailability. These results suggest that agents which inhibit nuclear translocation of NF-kappaB may prove useful for the treatment of muscle wasting in cancer cachexia...
  36. ncbi Hv-WRKY38: a new transcription factor involved in cold- and drought-response in barley
    Caterina Marè
    Istituto Sperimentale per la Cerealicoltura, Via S Protaso 302, Italy
    Plant Mol Biol 55:399-416. 2004
    ..Arabidopsis and rice sequences homologous to Hv-WRKY38 were also identified. Our results indicate that Hv-WRKY38 transcription factor may play a regulatory role in abiotic stress response...
  37. pmc Transcriptional regulation of xyn1, encoding xylanase I, in Hypocrea jecorina
    Roman Rauscher
    Gene Technology, Gene Technology and Applied Biochemistry, Institute of Chemical Engineering, TU Wien, Getreidemarkt 9 166 5 2, A 1060 Vienna, Austria
    Eukaryot Cell 5:447-56. 2006
    ..These data prompted us to hypothesize that xyn1 regulation is based on the interplay of Cre1 and Ace1 as a general and specific repressor with Xyr1 as transactivator...
  38. ncbi Complex regulation of csgD promoter activity by global regulatory proteins
    Ulrich Gerstel
    Microbiology and Tumorbiology Center, Karolinska Institutet, Stockholm, Sweden
    Mol Microbiol 49:639-54. 2003
    ..A complex regulatory network involving IHF, H-NS and OmpR is proposed whereby the nucleo-complex composition in the csgD-csgBA intergenic region is altered in response to oxygen tension...
  39. ncbi Derepression of BDNF transcription involves calcium-dependent phosphorylation of MeCP2
    Wen G Chen
    Division of Neuroscience, Children s Hospital, Harvard Medical School, Boston, MA 02115, USA
    Science 302:885-9. 2003
    ..These studies indicate that MeCP2 plays a key role in the control of neuronal activity-dependent gene regulation and suggest that the deregulation of this process may underlie the pathology of RT T...
  40. ncbi A twist code determines the onset of osteoblast differentiation
    Peter Bialek
    Department of Molecular and Human Genetics, Bone Disease Program of Texas, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Dev Cell 6:423-35. 2004
    ..In vivo mutagenesis confirms the antiosteogenic function of the Twist box. Thus, relief of inhibition by Twist proteins is a mandatory event precluding osteoblast differentiation...
  41. pmc Influence of operator site geometry on transcriptional control by the YefM-YoeB toxin-antitoxin complex
    Simon E S Bailey
    Faculty of Life Sciences and Manchester Interdisciplinary Biocentre, The University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
    J Bacteriol 191:762-72. 2009
    ..Deciphering the molecular basis of toxin-antitoxin transcriptional control will provide key insights into toxin-antitoxin activation and function...
  42. ncbi Kaiso/p120-catenin and TCF/beta-catenin complexes coordinately regulate canonical Wnt gene targets
    Jae Il Park
    Department of Biochemistry and Molecular Biology, University of Texas M D Anderson Cancer Center, Houston, Texas 77030, USA
    Dev Cell 8:843-54. 2005
    ..These studies point to convergence of parallel p120-catenin/Kaiso and beta-catenin/TCF signaling pathways to regulate gene expression in vertebrate development and possibly carcinogenesis...
  43. pmc The cyclic AMP receptor protein, CRP, is required for both virulence and expression of the minimal CRP regulon in Yersinia pestis biovar microtus
    Lingjun Zhan
    Institute of Laboratory Animal Sciences, Chinese Academy of Medicine Peking Union Medical College, Beijing 100021, China
    Infect Immun 76:5028-37. 2008
    ..pestis genes were affected by this mutation. Further reverse transcription-PCR and electrophoretic mobility shift assay analyses disclosed a set of 37 genes or putative operons to be the direct targets of CRP, and thus ..
  44. pmc The two-component regulatory system senX3-regX3 regulates phosphate-dependent gene expression in Mycobacterium smegmatis
    Robert T Glover
    Howard Hughes Medical Institute, Albert Einstein College of Medicine, Bronx, New York 10461, USA
    J Bacteriol 189:5495-503. 2007
    ..A DNA motif consisting of an inverted repeat was identified in each of the promoters bound by RegX3 approximately P. Based upon our findings, we propose a model for P(i)-regulated gene expression mediated by SenX3-RegX3 in mycobacteria...
  45. ncbi OmpR negatively regulates expression of invasin in Yersinia enterocolitica
    Katarzyna Brzostek
    Department of Applied Microbiology, Institute of Microbiology, Warsaw University, Miecznikowa 1, 02 096 Warsaw, Poland
    Microbiology 153:2416-25. 2007
    ..OmpR was able to specifically bind to a fragment of the inv promoter containing this putative binding site in electrophoretic mobility shift assays. Thus, OmpR seems to be a repressor of inv in Y. enterocolitica...
  46. pmc PdhR (pyruvate dehydrogenase complex regulator) controls the respiratory electron transport system in Escherichia coli
    Hiroshi Ogasawara
    Department of Frontier Bioscience, Hosei University, Kajino cho 3 7 2, Koganei, Tokyo 184 8584, Japan
    J Bacteriol 189:5534-41. 2007
    ..Taken together, we propose that PdhR is a master regulator for controlling the formation of not only the PDH complex but also the respiratory electron transport system...
  47. ncbi Activation of JAK2/STAT3 signaling by osteopontin promotes tumor growth in human breast cancer cells
    Reeti Behera
    National Center for Cell Science, Pune, India
    Carcinogenesis 31:192-200. 2010
    ..Thus, targeting OPN and its regulated STAT3 signaling could be a potent therapeutic approach and understanding these mechanisms may form the basis of new therapeutic regimen for the management of breast cancer...
  48. ncbi GadE (YhiE) activates glutamate decarboxylase-dependent acid resistance in Escherichia coli K-12
    Zhuo Ma
    Department of Microbiology and Immunology, University of South Alabama College of Medicine, Mobile, AL 36688, USA
    Mol Microbiol 49:1309-20. 2003
    ..The number of regulatory proteins (five), sigma factors (two) and regulatory feedback loops focused on gadA/BC expression make this one of the most intensively regulated systems in E. coli...
  49. pmc Radiation-induced HIF-1alpha cell survival pathway is inhibited by soy isoflavones in prostate cancer cells
    Vinita Singh-Gupta
    Department of Radiation Oncology, Barbara Ann Karmanos Cancer Institute, Wayne State University School of Medicine, Detroit, MI
    Int J Cancer 124:1675-84. 2009
    ....
  50. pmc Influence of melatonin on cerebrovascular proinflammatory mediators expression and oxidative stress following subarachnoid hemorrhage in rabbits
    Qi Fang
    Department of Neurology, The First Affiliated Hospital of Soochow University, Suzhou 215006, China
    Mediators Inflamm 2009:426346. 2009
    ....
  51. pmc From an electrophoretic mobility shift assay to isolated transcription factors: a fast genomic-proteomic approach
    Astrid R Mach-Aigner
    Department of Gene Technology and Applied Biochemistry, Institute of Chemical Engineering, TU Wien, Austria
    BMC Genomics 11:644. 2010
    ..Here, we design an approach for identifying a repressor of a xylanase-encoding gene...
  52. pmc Determination of Kaposi's sarcoma-associated herpesvirus C-terminal latency-associated nuclear antigen residues mediating chromosome association and DNA binding
    Brenna Kelley-Clarke
    Channing Laboratory, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School, 181 Longwood Avenue, Boston, MA 02115, USA
    J Virol 81:4348-56. 2007
    ..Different subsets of amino acids were important for DNA binding, as assayed by electrophoretic mobility shift assay, and mitotic chromosome association, indicating that distinct C-terminal LANA subdomains effect DNA ..
  53. pmc Protein nitration and nitrosylation by NO-donating aspirin in colon cancer cells: Relevance to its mechanism of action
    Jennie L Williams
    Division of Cancer Prevention, Stony Brook University, HSC, T17 080, Stony Brook, NY 11794 8173, USA
    Exp Cell Res 317:1359-67. 2011
    ....
  54. pmc Isolation and characterization of Ehrlichia chaffeensis RNA polymerase and its use in evaluating p28 outer membrane protein gene promoters
    Bonto Faburay
    Department of Diagnostic Medicine Pathobiology, College of Veterinary Medicine, Kansas State University, Manhattan, KS 66506, USA
    BMC Microbiol 11:83. 2011
    ..The adaptive response of the pathogen to different host environments entails switch of gene expression regulated at the level of transcription, possibly by altering RNA polymerase activity...
  55. ncbi Inhibitory effect of siRNA complexes with polyamidoamine dendrimer/α-cyclodextrin conjugate (generation 3, G3) on endogenous gene expression
    Hidetoshi Arima
    Graduate School of Pharmaceutical Sciences, Kumamoto University, 5 1 Oe honmachi, Kumamoto 862 0973, Japan
    Eur J Pharm Sci 44:375-84. 2011
    ..Taken together, α-CDE (G3) could be potentially used as a siRNA carrier to provide the RNAi effect on endogenous gene expression with negligible cytotoxicity...
  56. ncbi Polymerization of SopA partition ATPase: regulation by DNA binding and SopB
    Jean Yves Bouet
    Laboratoire de Microbiologie et de Génétique Moléculaire, UMR5100 CNRS, Toulouse, France
    Mol Microbiol 63:468-81. 2007
    ..The results suggest that in vivo, SopB smothers DNA by spreading from sopC, allowing SopA-ATP polymerization which initiates plasmid displacement. We propose that SopB and nucleoid DNA regulate SopA polymerization and hence partition...
  57. pmc Preparation, characterization, and efficient transfection of cationic liposomes and nanomagnetic cationic liposomes
    Hamid Reza Samadikhah
    Department of Biochemistry, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, Iran
    Int J Nanomedicine 6:2275-83. 2011
    ..The aim of this study was to develop novel CLs containing magnetite to overcome the deficiencies...
  58. ncbi Identification of a cis-acting regulatory motif recognized by MYB46, a master transcriptional regulator of secondary wall biosynthesis
    Won Chan Kim
    Department of Horticulture, Michigan State University, East Lansing, MI 48824 1222, USA
    Plant Mol Biol 78:489-501. 2012
    ..We used electrophoretic mobility shift assay, transient transcriptional activation assay and chromatin immunoprecipitation analysis to show that ..
  59. ncbi Telomere-binding protein TRF2 binds to and stimulates the Werner and Bloom syndrome helicases
    Patricia L Opresko
    Laboratory of Molecular Gerontology, NIA, National Institutes of Health, 5600 Nathan Shock Drive, Baltimore, MD 21224, USA
    J Biol Chem 277:41110-9. 2002
    ..These results suggest that TRF2 functions with WRN, and possibly BLM, in a common pathway at telomeric ends...
  60. pmc Aberrant expression and constitutive activation of STAT3 in cervical carcinogenesis: implications in high-risk human papillomavirus infection
    Shirish Shukla
    Division of Molecular Oncology, Institute of Cytology and Preventive Oncology, I 7, Sector 39, Noida, U P, India
    Mol Cancer 9:282. 2010
    ....
  61. pmc High- and low-threshold genes in the Spo0A regulon of Bacillus subtilis
    Masaya Fujita
    Department of Molecular and Cellular Biology, Harvard University, 16 Divinity Ave, Cambridge, MA 02138, USA
    J Bacteriol 187:1357-68. 2005
    ....
  62. pmc Regulation of (pro)renin receptor expression by glucose-induced mitogen-activated protein kinase, nuclear factor-kappaB, and activator protein-1 signaling pathways
    Jiqian Huang
    Department of Medicine, University of Virginia Health System, Charlottesville, VA 22908 1409, USA
    Endocrinology 151:3317-25. 2010
    ..NF-kappaB and AP-1 are involved in high-glucose-induced PRR up-regulation in rat mesangial cells...
  63. pmc Regulation of secondary wall synthesis and cell death by NAC transcription factors in the monocot Brachypodium distachyon
    Elene R Valdivia
    Dpto Fisiología Vegetal, Facultad de Biologia, Universidad de Santiago, Santiago de Compostela, 15782, Spain
    J Exp Bot 64:1333-43. 2013
    ..Together, these results suggest that Brachypodium SWNs can act as switches that turn on secondary cell-wall synthesis and programmed cell death...
  64. pmc CC1, a novel crenarchaeal DNA binding protein
    Xiao Luo
    Centre for Biomolecular Sciences, University of St Andrews, St Andrews, Fife KY16 9ST, UK
    J Bacteriol 189:403-9. 2007
    ..tenax. This protein binds single- and double-stranded DNAs with similar affinities. These properties are consistent with a role for CC1 as a crenarchaeal chromatin protein...
  65. ncbi Domain structure of a NHEJ DNA repair ligase from Mycobacterium tuberculosis
    Robert S Pitcher
    Genome Damage and Stability Centre, University of Sussex, Falmer, Brighton BN1 9RQ, UK
    J Mol Biol 351:531-44. 2005
    ..Consistent with these data, Mt-Ku stimulated the primer extension activity of the polymerase domain, suggestive of a functional interaction relevant to NHEJ-mediated DSB repair processes...
  66. ncbi Single-stranded DNA-binding protein complex from Helicobacter pylori suggests an ssDNA-binding surface
    Kun Wei Chan
    Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu 300, Taiwan, ROC
    J Mol Biol 388:508-19. 2009
    ..and the ssDNA-binding characteristics of HpSSB were analyzed by fluorescence titration and electrophoretic mobility shift assay. Tryptophan fluorescence quenching was measured as 61%, and the calculated cooperative affinity was ..
  67. ncbi Tau protein binds to pericentromeric DNA: a putative role for nuclear tau in nucleolar organization
    Marcela K Sjöberg
    Laboratory of Cellular, Molecular Biology and Neurosciences, Millennium Institute for Advanced Studies in Cell Biology and Biotechnology CBB, Faculty of Sciences, University of Chile, Las Encinas 3370, Nunoa, Santiago, Chile
    J Cell Sci 119:2025-34. 2006
    ..We discuss nucleolar tau associated with AT-rich alpha-satellite DNA sequences as a potential molecular link between trisomy 21 and AD...
  68. pmc Role of Stat3 in regulating p53 expression and function
    Guilian Niu
    Immunology Program, H Lee Moffitt Cancer Center and Research Institute, Tampa, FL 33612, USA
    Mol Cell Biol 25:7432-40. 2005
    ..Thus, repression of p53 expression by Stat3 is likely to have an important role in development of tumors, and targeting Stat3 represents a novel therapeutic approach for p53 reactivation in many cancers lacking p53 mutations...
  69. ncbi DNA-binding specificity of the CYS3 transcription factor of Neurospora crassa defined by binding-site selection
    John V Paietta
    Department of Biochemistry and Molecular Biology, Wright State University, Dayton, OH 45435, USA
    Fungal Genet Biol 45:1166-71. 2008
    ..The CYS3-binding site data will be useful for the genome-wide study of sulfur-regulated genes in N. crassa, which has served as a model fungal sulfur control system...
  70. ncbi APLF (C2orf13) facilitates nonhomologous end-joining and undergoes ATM-dependent hyperphosphorylation following ionizing radiation
    Chloe J Macrae
    Ontario Cancer Institute, University Health Network, Toronto, ON, Canada
    DNA Repair (Amst) 7:292-302. 2008
    ..Collectively, these results suggest that APLF is an ATM target that is involved in NHEJ and facilitates DSB repair, likely via interactions with Ku and XRCC4-DNA ligase IV...
  71. pmc The iron-responsive Fur regulon in Yersinia pestis
    He Gao
    College of Life Sciences, Northeast Normal University, Changchun 130024, People s Republic of China
    J Bacteriol 190:3063-75. 2008
    ..The subsequent electrophoretic mobility shift assay (EMSA) demonstrated that a purified His(6) tag-fused Fur protein was able to bind in vitro to each ..
  72. ncbi Characterization of a single-stranded DNA binding protein from Salmonella enterica serovar Typhimurium LT2
    Yen Hua Huang
    Department of Biomedical Sciences, Chung Shan Medical University, No 110, Sec 1, Chien Kuo N Rd, Taichung City, Taiwan
    Protein J 30:102-8. 2011
    ..On the basis of these biophysical analyses, the ssDNA binding-mode of StSSB is expected to be noncooperative...
  73. ncbi Beyond the enhanceosome: cluster of novel κB sites downstream of the human IFN-β gene is essential for lipopolysaccharide-induced gene activation
    Fui G Goh
    Imperial College of Science, Technology and Medicine, London, UK
    Blood 116:5580-8. 2010
    ..These findings demonstrate that IFN-β gene activation via multifactorial enhanceosome assembly is potentiated in LPS-stimulated cells by NF-κB interactions with all functional κB sites in the locus...
  74. ncbi Disulfiram/copper complex inhibiting NFkappaB activity and potentiating cytotoxic effect of gemcitabine on colon and breast cancer cell lines
    Xiaoxia Guo
    Research Institute in Healthcare Science, University of Wolverhampton, UK
    Cancer Lett 290:104-13. 2010
    ..The dFdC-induced NFkappaB activity was markedly inhibited by DS/Cu complex. The data from this study indicated that DS may be used in clinic to improve the therapeutic effect of dFdC in breast and colon cancer patients...
  75. pmc Identification and functional analysis of a second RBF-2 binding site within the HIV-1 promoter
    Matthew S Dahabieh
    Department of Biochemistry and Molecular Biology, Molecular Epigenetics, Life Sciences Institute, University of British Columbia, 2350 Health Sciences Mall, Vancouver, B C Canada
    Virology 418:57-66. 2011
    ..Collectively, our data indicate that RBE1 is a bona fide RBF-2 binding site and that the RBE1 and RBE3 elements are necessary for mediating proper transcription from the HIV-1 LTR...
  76. ncbi MAPK kinase 3 specifically regulates Fc epsilonRI-mediated IL-4 production by mast cells
    Adam J MacNeil
    Department of Microbiology and Immunology, Dalhousie University, Halifax, Nova Scotia B3K 6R8, Canada
    J Immunol 187:3374-82. 2011
    ..Thus, mast cell MKK3 signaling contributes to IgE-dependent allergic inflammation and is a specific regulator of FcεRI-induced IL-4 production...
  77. ncbi C/EBP-beta drives expression of the nutritionally regulated promoter IA of the acetyl-CoA carboxylase-alpha gene in cattle
    Xuanming Shi
    Research Units for Molecular Biology, Leibniz Institute for Farm Animal Biology FBN, Wilhelm Stahl Allee 2, D 18196 Dummerstorf, Germany
    Biochim Biophys Acta 1799:561-7. 2010
    ..Hence, activity of this factor may be a key regulator of ACC-alpha-expression in lipogenic tissues...
  78. pmc NKX2-5 regulates the expression of beta-catenin and GATA4 in ventricular myocytes
    Ali M Riazi
    Labatt Family Heart Centre, Hospital for Sick Children, Toronto, Ontario, Canada
    PLoS ONE 4:e5698. 2009
    ..The interplay between these factors and their downstream targets are not completely understood. Here, we studied regulation of beta-catenin and GATA4 by NKX2-5 in human fetal cardiac myocytes...
  79. pmc Centromere binding and evolution of chromosomal partition systems in the Burkholderiales
    Fanny M Passot
    Laboratoire de Microbiologie et Genetique Moleculaires, UMR 5100 CNRS Université Paul Sabatier, Toulouse, France
    J Bacteriol 194:3426-36. 2012
    ..cenocepacia c3 includes plasmid variants with parS sequences divergent from that of c3. Using electrophoretic mobility shift assay (EMSA), we found that ParB-c3 binds specifically to centromeres of these variants, despite high DNA ..
  80. pmc NF-kappaB/STAT3/PI3K signaling crosstalk in iMyc E mu B lymphoma
    Seong Su Han
    University of Iowa Carver College of Medicine, Department of Pathology, Iowa City, IA, USA
    Mol Cancer 9:97. 2010
    ..To study the mechanism of Myc-induced lymphoma, we analyzed signaling pathways in lymphoblastic B-cell lymphomas (LBLs) from iMyc E mu mice, and an LBL-derived cell line, iMyc E mu-1...
  81. pmc Nitric oxide stimulates heme oxygenase-1 gene transcription via the Nrf2/ARE complex to promote vascular smooth muscle cell survival
    Xiao ming Liu
    Department of Medical Pharmacology and Physiology, University of Missouri, Columbia, MO 65212, USA
    Cardiovasc Res 75:381-9. 2007
    ..In the present study, we determined the signaling pathway responsible for the induction of HO-1 and its biological significance...
  82. ncbi Differential regulation of BACE1 promoter activity by nuclear factor-kappaB in neurons and glia upon exposure to beta-amyloid peptides
    Krystyn Z Bourne
    Department of Neuroscience and Cell Biology, University of Texas Medical Branch, Galveston, TX 77555 1072, USA
    J Neurosci Res 85:1194-204. 2007
    ....
  83. pmc Phosphatase PRL-3 is a direct regulatory target of TGFbeta in colon cancer metastasis
    Yanjun Jiang
    University of Nebraska Medical Center, Eppley Institute for Research in Cancer and Allied Diseases, Omaha, Nebraska 68198, USA
    Cancer Res 71:234-44. 2011
    ..Therefore, a major implication of our findings is that PRL-3 antagonists may offer significant value for antimetastatic therapy in patients with colon cancer...
  84. pmc Nuclear CD40 interacts with c-Rel and enhances proliferation in aggressive B-cell lymphoma
    Hai jun Zhou
    Department of Hematopathology, University of Texas M D Anderson Cancer Center, Houston, TX 77030, USA
    Blood 110:2121-7. 2007
    ..Modulating the nuclear function of CD40 and c-Rel could reveal new mechanisms in LBCL pathophysiology and provide potential new targets for lymphoma therapy...
  85. ncbi SanG, a transcriptional activator, controls nikkomycin biosynthesis through binding to the sanN-sanO intergenic region in Streptomyces ansochromogenes
    Xihong He
    State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
    Microbiology 156:828-37. 2010
    ..These results indicated that the ATPase/GTPase activity of SanG modulated the transcriptional activation of SanG target genes during nikkomycin biosynthesis...
  86. ncbi Monitoring hepatitis C virus (HCV) RNA-dependent RNA polymerase oligomerization by a FRET-based in vitro system
    Itxaso Bellón-Echeverría
    Centro Regional de Investigaciones Biomédicas, Universidad de Castilla La Mancha, Albacete, Spain
    Antiviral Res 87:57-66. 2010
    ..Finally, oligomerization experiments in the presence of non-nucleoside inhibitor (NNI) PF-254027 gave a statistically significant reduction in the FRET signal, suggesting a new connection between NS5B oligomerization and NNI binding...
  87. pmc Quantitative analysis of protein-RNA interactions by gel mobility shift
    Sean P Ryder
    Department of Biochemistry and Molecular Pharmacology, UMass Medical School, Worcester, Massachusetts, USA
    Methods Mol Biol 488:99-115. 2008
    ..Assay designs for titration, competition, and stoichiometry experiments are presented for two unrelated model complexes...
  88. pmc HNF4alpha and HNF1alpha dysfunction as a molecular rational for cyclosporine induced posttransplantation diabetes mellitus
    Jurgen Borlak
    Fraunhofer Institute of Toxicology and Experimental Medicine, Medical School of Hannover, Hannover, Germany
    PLoS ONE 4:e4662. 2009
    ..We propose cyclosporine to repress HNF4alpha gene and protein expression, DNA-binding to targeted promoters and subsequent regulation of genes coding for glucose metabolism and of pancreatic beta-cell function...
  89. pmc Effect of Mg(2+) and Na(+) on the nucleic acid chaperone activity of HIV-1 nucleocapsid protein: implications for reverse transcription
    My Nuong Vo
    Department of Chemistry and Institute for Molecular Virology, University of Minnesota, Minneapolis, MN 55455, USA
    J Mol Biol 386:773-88. 2009
    ....
  90. ncbi Overexpression of Wnt-1 in thyrocytes enhances cellular growth but suppresses transcription of the thyroperoxidase gene via different signaling mechanisms
    Won Bae Kim
    Edison Biotechnology Institute and College of Osteopathic Medicine, Ohio University, The Ridges, Athens, Ohio 45701, USA
    J Endocrinol 193:93-106. 2007
    ..We hypothesize that Wnt signaling contributes to the ability of TSH to simultaneously increase cell growth and functional, thyroid-specific, gene expression...
  91. ncbi Use of DNA arrays to identify a mutation in the negative regulator, csrR, responsible for the high virulence of a naturally occurring type M3 group A streptococcus clinical isolate
    Tohru Miyoshi-Akiyama
    Department of Infectious Diseases, International Medical Center of Japan, Tokyo, Japan
    J Infect Dis 193:1677-84. 2006
    ..Although wt CsrR bound to the hasA promoter region, type M3-f CsrR did not. Thus, the high virulence of the type M3-f strain is associated with the decreased binding of type M3-f CsrR to its target sequences...
  92. pmc Methods for proteomic analysis of transcription factors
    Daifeng Jiang
    Department of Chemistry, University of Texas at San Antonio, San Antonio, TX 78249, USA
    J Chromatogr A 1216:6881-9. 2009
    ..The electrophoretic mobility shift assay (EMSA) is the most important assay of TFs because it provides both measures of the affinity and ..
  93. pmc Characterization of the core mammalian clock component, NPAS2, as a REV-ERBalpha/RORalpha target gene
    Christine Crumbley
    The Scripps Research Institute, Jupiter, Florida 33458, USA
    J Biol Chem 285:35386-92. 2010
    ..These data suggest a mechanism by which RORα and REV-ERBα coordinately regulate the expression of the positive arm of the circadian rhythm feedback loop...
  94. ncbi Lycopene inhibits TNF-alpha-induced endothelial ICAM-1 expression and monocyte-endothelial adhesion
    Chi Feng Hung
    School of Medicine, Fu Jen Catholic University, Taipei, Taiwan
    Eur J Pharmacol 586:275-82. 2008
    ..NF-kappaB-DNA but not AP1-DNA complexes formation was inhibited by lycopene, as determined by the electrophoretic mobility shift assay (EMSA)...
  95. ncbi Sterol regulatory element-binding protein 1 is negatively modulated by PKA phosphorylation
    Min Lu
    Division of Biomedical Sciences, Univ of California, Riverside, Riverside, CA 92521 0121, USA
    Am J Physiol Cell Physiol 290:C1477-86. 2006
    ..Accordingly, the adenovirus-mediated expression of SREBP-1c(N)-S314D in HepG2 cells retarded lipogenesis. Our results indicate that the cAMP-PKA pathway, by phosphorylating SREBP-1, may modulate lipid metabolism in liver cell lines...
  96. ncbi Antitumor action of curcumin in human papillomavirus associated cells involves downregulation of viral oncogenes, prevention of NFkB and AP-1 translocation, and modulation of apoptosis
    Chandrasekhar S Divya
    Department of Molecular Medicine, Regional Cancer Centre, Thiruvananthapuram, Kerala, India
    Mol Carcinog 45:320-32. 2006
    ..b>Electrophoretic mobility shift assay revealed that activation of NFkappaB-induced by TNFalpha is down regulated by curcumin...
  97. ncbi Induction of arginase I transcription by IL-4 requires a composite DNA response element for STAT6 and C/EBPbeta
    Michael J Gray
    Department of Molecular Genetics and Biochemistry, W1255 Biomedical Science Tower, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA
    Gene 353:98-106. 2005
    ..Elucidation of the mechanisms involved in regulation of arginase I transcription may provide a basis for developing strategies to modulate arginase expression in Th2 cytokine-predominant diseases...
  98. pmc MisR/MisS two-component regulon in Neisseria meningitidis
    Yih Ling Tzeng
    Department of Medicine, Emory University School of Medicine, Atlanta, Georgia, USA
    Infect Immun 76:704-16. 2008
    ..These data indicate that the MisR/S system influences a wide range of biological functions in N. meningitidis either directly or via intermediate regulators...
  99. pmc Structural insights into the cTAR DNA recognition by the HIV-1 nucleocapsid protein: role of sugar deoxyriboses in the binding polarity of NC
    Ali Bazzi
    LBPA, ENS de Cachan, CNRS, Cachan, Faculte de Pharmacie, Universite de Strasbourg, 74 route du Rhin, 67401 Illkirch, France
    Nucleic Acids Res 39:3903-16. 2011
    ..We propose that the binding polarity of NC is related to these contacts that could be responsible for the preferential binding to single-stranded nucleic acids...
  100. ncbi A single spacer nucleotide determines the specificities of two mRNA regulatory proteins
    Laura Opperman
    Department of Biochemistry, 433 Babcock Drive, University of Wisconsin, Madison, Wisconsin 53706, USA
    Nat Struct Mol Biol 12:945-51. 2005
    ..We suggest that new specificities can be designed and selected using the PUF scaffold...
  101. pmc RelA repression of RelB activity induces selective gene activation downstream of TNF receptors
    Emilie Jacque
    Departement d Hematologie, Institut Cochin, Institut National de la Sante et de la Recherche Medicale U567, 75014 Paris, France
    Proc Natl Acad Sci U S A 102:14635-40. 2005
    ....

Research Grants63

  1. FOXP3-microRNA146-NFkB Axis in Tumor Suppression
    Lizhong Wang; Fiscal Year: 2013
    ..We will use chromatin immunoprecipitation, electrophoretic mobility shift assay and luciferase reporter assays as well as site-directed mutagenesis to identify the functional ..
  2. FUNCTIONAL AND TARGETING POLYMERIC GENE CARRIERS
    Sung Wan Kim; Fiscal Year: 2012
    ..The poly(CBA-DAH)/pCMV-VEGF polyplexes will be evaluated by electrophoretic mobility shift assay, dynamic light scattering (DLS), zeta potential, and cytosolic degradation kinetics...
  3. Expression control in Drosophila splicing assembly factor RNP-4F
    JACK VAUGHN; Fiscal Year: 2010
    ..Westerns to show that the identified dADAR mRNA isoforms are translated into protein;(d) using RNA electrophoretic mobility shift assay to detect protein factors which directly bind the rnp-4f long stem-loop;(e) using MALDI-TOF mass ..
  4. Distinct roles of CARP target genes in wound healing
    Karinna Almodóvar; Fiscal Year: 2013
    ..CARP to regulate MMP-13 activity as well as characterizing how exactly CARP regulates MMP-13 using electrophoretic mobility shift assay (EMSA) and ChIP analysis...
  5. Identification of the transcriptional regulators of chondrocyte hypertrophy
    ANDREW BRUCE LASSAR; Fiscal Year: 2013
    ..By employing a systematic electrophoretic mobility shift assay (EMSA) with the chicken collagen X regulatory sequences, the Lassar lab has identified a DNA ..
  6. Functional analysis of AMD-associated HTRA1 promoter polymorphism
    Noriko Esumi; Fiscal Year: 2010
    ..b>Electrophoretic mobility shift assay (EMSA) and chromatin immunoprecipitation (ChIP) will be used to analyze binding of these factors in ..
  7. Regulation of Replication Origin Usage in Saccharomyces cerevisiae
    Bik Kwoon Tye; Fiscal Year: 2009
    ..Interactions between Mcm1 and components of the pre-RC will be analyzed by electrophoretic mobility shift assay (EMSA) and Dnase! footprinting...
  8. Central Mechanisms of Orofacial Pain
    Jianren Mao; Fiscal Year: 2012
    ..Western blot, in situ hybridization, real-time RT-PCR, protein kinase activity assay, electrophoretic mobility shift assay, and enzyme-linked immunosorbent assay to accomplish three specific aims: 1) to evaluate the ..
  9. Toll-Like Receptors and Atherosclerosis in Diabetes
    Yan Huang; Fiscal Year: 2013
    ..we will use macrophages and macrophage cell line and perform molecular biology studies such as electrophoretic mobility shift assay and promoter activity analysis...
  10. PARP-1 is a Negative Modulator of the Heart Shock Response
    RAJESH K ANEJA; Fiscal Year: 2010
    ..However, DNA binding of HSF-1 in heat-shocked PARP-1-/- cells is not detectable by electrophoretic mobility shift assay (EMSA)...
  11. Palmitic Acid Regulation of Dendritic Cell Toll-Like Receptor 4 Signaling
    DEQUINA ANGELINA NICHOLAS; Fiscal Year: 2013
    ..b>Electrophoretic mobility shift assay (EMSA), western blot, and siRNA knockdown will be used to assess the roles that ROS play in TLR4 ..
  12. Interrogation of Androgen Receptor:Forkhead Interaction Using Py-Im Polyamides
    THOMAS FARID MARTINEZ; Fiscal Year: 2013
    ..To demonstrate that co-occupancy of AR and a Fkhd is possible, an electrophoretic mobility shift assay (EMSA) will be employed...
  13. Low Activity Oligomers of Porphobilinogen Synthase as Antibiotic Targets
    Eileen K Jaffe; Fiscal Year: 2010
    ..abstract_text> ..
  14. The role of c-Maf in Stem cells in Leukemia
    UJUNWA CYNTHIA OKOYE; Fiscal Year: 2013
    ..Biochemical assays such as Electrophoretic Mobility Shift Assay, Chromatin Immunoprecipitation, promoter-reporter assays and targeted mutagenesis, will be used to ..
  15. POLYNUCLEOTIDE HIGH PERFORMANCE AFFINITY CHROMATOGRAPHY
    Harry W Jarrett; Fiscal Year: 2013
    ..is now studied is to identify each response element contained within its sequence, use the electrophoretic mobility shift assay to detect whether the isolated element is in fact bound by a nuclear protein, and then use DNA-..
  16. Long-range function of the ERV-9 LTR in regulating globin gene switching
    DOROTHY Y TUAN; Fiscal Year: 2012
    ..In aim 1, we will use electrophoretic mobility shift assay (EMSA) and chromotin immunoprecipitation (ChIP) to determine if the levels of NF-Y, GATA-2 and CBP/..
  17. Transcription Factors in Neuroendocrine Differentiation
    Michael Lan; Fiscal Year: 2009
    ..The IA-1 protein binding was confirmed by competitive electrophoretic mobility shift assay. Studies on the IA-1 promoter revealed a DNasel footprint protected site between -90 to -66 bp and ..
  18. CONJUGAL TRANSFER OF BACTERIODES ANTIBIOTIC RESISTANCES
    Abigail A Salyers; Fiscal Year: 2010
    ....
  19. Role of Trps1 in endochondral bone formation
    Dobrawa Napierala; Fiscal Year: 2011
    ..To achieve the second aim we will employ a combination of electrophoretic mobility shift assay (EMSA), reporter expression assays and analyses of the effect of the Trps1 deficiency and over-..
  20. REGULATION OF BILE ACID SYNTHESIS
    JOHN CHIANG; Fiscal Year: 1999
    ..bile acids and other physiological stimuli by DNase I footprinting, linker scanning mutagenesis and electrophoretic mobility shift assay (EMSA); 3) to study the regulation of the rat CYP7 gene expression by signal transduction pathways ..
  21. LAMININ GENE EXPRESSION IN GLOMERULAR CELLS
    Karol Bomsztyk; Fiscal Year: 2002
    ..If the silencer can been narrowed down to 10-20 bp, then mutations can be made in the context of the -233/-15 fragment to abolish silencer activity. He will also test the silencer effect on heterologous promoters (SV40). ..
  22. NUR77 Agonists: New Targets for Pancreatic Cancer Chemotherapy
    Stephen H Safe; Fiscal Year: 2011
    ..will be used as prototypical Nur77 agonists for investigating ligand-dependent Nur77-DNA binding in electrophoretic mobility shift assay and ligand-induced Nur77-coactivator interactions and enhanced transactivation...
  23. ANTIVIRAL ACTIVITY OF THE IMMUNOSUPPRESSANT LEFLUNOMIDE
    W Waldman; Fiscal Year: 2004
    ..from leflunomide-treated (or untreated) CMV-infected cells will be quantitatively analyzed by electrophoretic mobility shift assay for binding of CMV-relevant host transcription factors to their respective consensus DNA binding ..
  24. IL15 AND NATURAL KILLER (NK) CELL FUNCTION
    William Carson; Fiscal Year: 1999
    ..Finally, the role of IL-15 in a unique cytokine signalling pathway will be investigated using the electrophoretic mobility shift assay to analyze IL- 15-induced DNA binding proteins...
  25. Regulation of genes involved in hepatic drug elimination by female hormones
    Hyunyoung Jeong; Fiscal Year: 2009
    ..2) Define the mechanisms by which estradiol regulates the expression of UGT1A4 and -1A9. Electrophoretic mobility shift assay, DNase I protection, and mutation assays will be performed...
  26. REGULATION OF MIS TYPE II RECEPTOR AND TARGET GENES
    Jose Teixeira; Fiscal Year: 2002
    ....
  27. Opportunistic Oral HSV-- Mechanisms of Reactivation
    Craig Miller; Fiscal Year: 2006
    ..identify cis elements that mediate stress responsiveness of HSV-1 promoters using the LUC assay, electrophoretic mobility shift assay (EMSA) and DNA footprinting...
  28. RETINOID SIGNALING IN HUMAN BRONCHIAL EPITHELIAL CELL
    Jonathan Kurie; Fiscal Year: 1999
    ..These studies will provide a rationale for the development of new strategies for the prevention or treatment of lung cancer which are based on insight into mechanisms of retinoid effects in HBE cells. ..
  29. M TB EFFECTS ON MACROPHAGE RESPONSES TO CYTOKINES
    Richard Pine; Fiscal Year: 1999
    ..to IFNs and TNFalpha, including ISGF-2/IRF-1 and NFkappaB, among others will be determined with the electrophoretic mobility shift assay. Quantitating the expression of marker genes such as inducible nitric oxide synthase, intercellular ..
  30. TRANSCRIPTIONAL REGULATION OF LH BETA GENE EXPRESSION
    Lisa Halvorson; Fiscal Year: 2003
    ..Ptx1 acts alone and in synergy with SF-1 to increase LHbeta promoter activity, as will be tested by electrophoretic mobility shift assay, transient transfection of immortalized cell lines, and generation of Ptx1 "knockdown" cell lines...
  31. HUMAN MISMATCH REPAIR IN CHEMICAL CARCINOGENESIS
    Guo Min Li; Fiscal Year: 2001
    ..To test this hypothesis, four lines of work are proposed in this application. First, using an electrophoretic mobility shift assay, purified hMutSa, a human mismatch recognition protein, will be tested for its ability to bind ..
  32. HCV PATHOGENESIS IN LIVER TRANSPLANT RECIPIENTS
    David Gretch; Fiscal Year: 2000
    ....
  33. MECHANISMS INVOLVED IN THE INDUCTION OF FETAL HEMOGLOBIN
    Betty Pace; Fiscal Year: 2000
    ..My institution has provided an environment conducive to strong basic research activities and sufficient opportunity for meaningful collaborative efforts. ..
  34. HIV-Encephalitis: Mechanisms for CXCL 10 Induction in Astrocytes
    Rachel Williams; Fiscal Year: 2009
    ..of MARK proteins, CXCL10 ELISA to determine pathways necessary for CXCL10 production, and electrophoretic mobility shift assay (EMSA) to determine NF-KB activity...
  35. PATHOGENESIS OF COCAETHYLENE-INDUCED VASCULITIS
    DANYEL TACKER; Fiscal Year: 2004
    ..treated monolayers will be tested for RNA and protein expression and activity changes utilizing electrophoretic mobility shift assay and supershift, RNAse protection assay, and Western blot...
  36. FGF SIGNALING AND PITUITARY TUMORIGENESIS
    ANDREW BRADFORD; Fiscal Year: 2001
    ..is normally not FGF responsive, and analysis of the nuclear factors binding to the FRE by both electrophoretic mobility shift assay and southwestern analysis. Analysis of FGF receptors and their responses in GH4 pituitary cells...
  37. PRIMARY DNA LESIONS AS SIGNALS FOR P53
    Jack Griffith; Fiscal Year: 1999
    ..The relevance of this work to cancer lies in the central role that p53 plays in tumor development and the possibility that by understanding how it functions, better anti-tumor therapies can be designed. ..
  38. REGULATION OF SURROGATE LIGHT CHAIN IN AGED MICE
    Bonnie Blomberg; Fiscal Year: 2005
    ..in lambda5/VpreB transcription regulation will be assayed by various methods including RT-PCR, electrophoretic mobility shift assay (EMSA), and transfection of lambda5/VpreB constructs...
  39. Recognition and Mechanisms of Transfer RNA Modifications
    RAVEN HUANG; Fiscal Year: 2006
    ..Conventional techniques for biochemical assays, such as electrophoretic mobility shift assay, chromatographic and spectroscopic methods, will be applied to characterize the freezing or ..
  40. The Role of RR in Chemotherapeutic Drug Resistance
    Yun Yen; Fiscal Year: 2005
    ..Taken together, our proposed studies will provide an integrated evaluation of the molecular control of RR-mediated chemotherapeutic drug resistance. ..
  41. OXIDATIVE STRESS AND MUSCLE CELL DEATH
    THOMAS RANDO; Fiscal Year: 2005
    ..Using this approach, we will test our specific hypothesis of the role of oxidative injury in the pathogenetic process and we will determine if the results of the expression array analysis suggest alternate hynotheses. ..
  42. ENDOCRINE CONTROL OF FETAL CARDIOVASCULAR DYNAMICS
    CECILIA CHEUNG; Fiscal Year: 2000
    ..of HIF-1 to its sequence-specific site on the ovine ANF 5'-flanking region will be determined by electrophoretic mobility shift assay. Specific Aim 4 will elucidate the developmental change in interaction between HIF-1 and ANF ..
  43. OSTEOBLASTOGENESIS IN MODELED MICROGRAVITY
    Jay McDonald; Fiscal Year: 2007
    ..A viable basis will thereby be provided for the development of drugs that can alter Cbfa1 and/or PPARgamma and mediate increased bone formation in astronauts, elderly and patients with disuse osteoporosis. ..
  44. REGULATION OF SERUM AMYLOID A PROTEIN SYNTHESIS
    BIMAL RAY; Fiscal Year: 1992
    ..These studies will enable the formation of the basis for future work regarding the regulation of SAA biosynthesis in patients with disease which predisposes to amyloidosis...
  45. Mentored Patient-Oriented Research Career Development Aw
    ALISSA GREENBERG; Fiscal Year: 2004
    ..using an AP-1-luciferase construct, and then investigate the mechanism of this inhibition using an electrophoretic mobility shift assay. Specific Aim 2 is to determine whether GCs can inhibit malignant transformation...
  46. Role of SOCS in Regulation of Transplantation Tolerance
    Stanislaw Stepkowski; Fiscal Year: 2004
    ..be correlated with tyrosine phosphorylation (by immunoprecipitation [IP]/WB) and DNA binding (by electrophoretic mobility shift assay [EMSA]) of Stat5 and Stat6 during tolerance induction...
  47. Regulation of NF-kappaB2 by TSA: Role of Acetylation
    Jing Hu; Fiscal Year: 2007
    ..In addition, we will determine whether p52 acetylation affects the binding of transcription factors Sp-1, AP-1, CREB to cyclin D1 promoter using EMSA and chromatin immunoprecipitation (ChIP). ..
  48. DEVELOPMENT OF NOVEL CORRELATIVE STUDIES FOR A PHASE I
    William Carson; Fiscal Year: 2000
    ..Levels of STAT proteins will be analyzed using the electrophoretic mobility shift assay. These techniques have never been systematically applied to patients enrolled in a clinical trial ..
  49. EUKARYOTIC GENE ORGANIZATION
    CLYDE HUTCHISON; Fiscal Year: 2000
    ..2) Anti- L1 ribozymes will be constructed to attempt to create a phenotype in cell lines and transgenic animals. ..
  50. PRODUCTION AND FUNCTION OF GHRH IN THE IMMUNE SYSTEM
    DOUGLAS WEIGENT; Fiscal Year: 2003
    ..It is further anticipated that the new understanding gained from the results will identify important sites for drug intervention against various immunodeficiencies including AIDS, autoimmunity, and aging. ..
  51. Transcription Factor markers - cellular oxidative stress
    Thomas Brown; Fiscal Year: 2004
    ..CI) for quantitative measurement of NF-?B (2) validated the CI by comparison with conventional electrophoretic mobility shift assay EMSA) (3) validated the utility of NF-?B as a marker for cellular oxidative stress in nuclear and ..
  52. MECHANISMS FOR PLACENTA-SPECIFIC GENE REGULATION
    Zhiyong Wang; Fiscal Year: 2002
    ..The DNA-binding domain and transactivation domain of PSEB will be localized by serial deletions. electrophoretic mobility shift assay (EMSA), transfection and reporter assays...
  53. T CELL ACTIVATION IN HIV 1 REVERSE TRANSCRIPTION/INTEGRA
    Linda Ludwig; Fiscal Year: 2000
    ..biotinylated HIV-1 single stranded DNA and RNA constructs using a non-radioactive adaptation of the electrophoretic mobility shift assay. Using this technique, the investigator proposes to investigate the interaction of HIV-1 reverse ..
  54. REGULATION OF EXPRESSION OF MGSA/GRO GENES IN MELANOMA
    Ann Richmond; Fiscal Year: 2001
    ..100, 40 and 22kD, and the binding of these proteins cannot be eliminated or supershifted in electrophoretic mobility shift assay by antibodies to other potentially relevant transcription factors...
  55. SUPRACHIASMATIC NUCLEI/NEUROBIOLOGY OF A CIRCADIAN CLOCK
    WILLIAM SCHWARTZ; Fiscal Year: 1999
    ....
  56. Regulation of DMP1 Gene Expression in Bone and Tooth
    Shuo Chen; Fiscal Year: 2004
    ..of the DNA-protein binding site by using selected and amplified binding and mutagenesis methods by electrophoretic mobility shift assay; 2) To determine the biological role of the consensus sequence(s) regulating DMP1 gene expression ..
  57. Transcriptional repression in response to p53
    William Taylor; Fiscal Year: 2005
    ..Since p53 is frequently mutated in cancer, our studies should provide new insight into how gene expression is deranged during tumorigenesis. ..
  58. Identification of Regulatory Elements of the Human C/EBPalpha Gene
    KAREN O BRIEN; Fiscal Year: 2006
    ..Second, we will determine whether YY1, PU.1, or other proteins regulate C/EBPa through the ORE during granulopoiesis. ..
  59. RETINOID/RETINOID RECEPTOR IN ESOPHAGEAL CANCER RESPONS
    Xiaochun Xu; Fiscal Year: 2002
    ..e., cytokeratin 1, involucrin, and cornifin, type I transglutaminase) in HEC cells. ..
  60. NF-KB: A Marker for Cellular Oxidative Stress
    SMITI GUPTA; Fiscal Year: 2001
    ..we plan to (a) develop a novel and ultra-sensitive ELISA to replace the tedious conventional electrophoretic mobility shift assay (EMSA) for evaluating the DNA binding activity of NF-kB, (b) establish whether the DNA binding ..
  61. BETA--A BRAIN-SPECIFIC TRANSCRIPTION ACTIVATOR
    YOAV CITRI; Fiscal Year: 1992
    ..g. hippocampus or parts of it) to be used in the electrophoretic mobility shift assay (EMSA) to assay for the DNA binding activity of BETA (2) Transfection of primary cultures of ..
  62. Notch Signaling and Prostate Cancer Bone Metastases
    Jay McDonald; Fiscal Year: 2007
    ..A basis will thereby be provided for the development of a new target for drug design and therapeutic intervention to combat the debilitating condition of PC metastases to bone. ..
  63. Enhancement of Cancer Therapy by Inhibiting NF-kB
    YAO ZHONG LIN; Fiscal Year: 2003
    ..b>Electrophoretic mobility shift assay and Western blotting will detect the inhibition of NF-kappa B nuclear translocation and DNA binding ..