Khalid Sa Khabar

Summary

Affiliation: King Faisal Specialist Hospital and Research Centre
Country: Saudi Arabia

Publications

  1. pmc An integrated computational and laboratory approach for selective amplification of mRNAs containing the adenylate uridylate-rich element consensus sequence
    Khalid S A Khabar
    Department of Biological and Medical Research, Epidemiology, and Scientific Computing Bioinformatics Section, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Genome Res 12:985-95. 2002
  2. pmc ARED 3.0: the large and diverse AU-rich transcriptome
    Tala Bakheet
    Department of Biostatistics, Epidemiology, and Scientific Computing Bioinformatics Section, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 34:D111-4. 2006
  3. pmc Post-transcriptional control during chronic inflammation and cancer: a focus on AU-rich elements
    Khalid S A Khabar
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, Riyadh, 11211, Saudi Arabia
    Cell Mol Life Sci 67:2937-55. 2010
  4. pmc ARED Organism: expansion of ARED reveals AU-rich element cluster variations between human and mouse
    Anason S Halees
    The Biomolecular Research Program, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 36:D137-40. 2008
  5. pmc miR-29a inhibition normalizes HuR over-expression and aberrant AU-rich mRNA stability in invasive cancer
    Wijdan Al-Ahmadi
    Molecular Biomedicine Programme, King Faisal Specialist Hospital and Research Centre, Riyadh, Saudi Arabia
    J Pathol 230:28-38. 2013
  6. pmc Regulation of p21/CIP1/WAF-1 mediated cell-cycle arrest by RNase L and tristetraprolin, and involvement of AU-rich elements
    Latifa Al-Haj
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Centre, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 40:7739-52. 2012
  7. pmc UU/UA dinucleotide frequency reduction in coding regions results in increased mRNA stability and protein expression
    Maher Al-Saif
    Department of Molecular Biomedicine, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia
    Mol Ther 20:954-9. 2012
  8. pmc Identification of a set of KSRP target transcripts upregulated by PI3K-AKT signaling
    Tina Ruggiero
    Istituto Nazionale per la Ricerca sul Cancro IST, 16132 Genova, Italy
    BMC Mol Biol 8:28. 2007
  9. pmc Cloning-free regulated monitoring of reporter and gene expression
    Latifa Al-Haj
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    BMC Mol Biol 10:20. 2009
  10. pmc Post-transcriptional control of the interferon system
    Khalid S A Khabar
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, P3354, MBC 03, Takhasusi Road, Riyadh 11211, Saudi Arabia
    Biochimie 89:761-9. 2007

Collaborators

Detail Information

Publications34

  1. pmc An integrated computational and laboratory approach for selective amplification of mRNAs containing the adenylate uridylate-rich element consensus sequence
    Khalid S A Khabar
    Department of Biological and Medical Research, Epidemiology, and Scientific Computing Bioinformatics Section, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Genome Res 12:985-95. 2002
    ..The integrated computational and laboratory approach should lead to enhanced capability for discovery and expression analysis of early and transient response genes...
  2. pmc ARED 3.0: the large and diverse AU-rich transcriptome
    Tala Bakheet
    Department of Biostatistics, Epidemiology, and Scientific Computing Bioinformatics Section, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 34:D111-4. 2006
    ..The wide interest in mRNA turnover and importance of AREs in health and disease signify the compilation of ARE-genes...
  3. pmc Post-transcriptional control during chronic inflammation and cancer: a focus on AU-rich elements
    Khalid S A Khabar
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, Riyadh, 11211, Saudi Arabia
    Cell Mol Life Sci 67:2937-55. 2010
    ..The second part addresses the common signaling pathways in inflammation and cancer that regulate the ARE-mediated pathways and how their deregulations affect ARE-gene regulation and disease outcome...
  4. pmc ARED Organism: expansion of ARED reveals AU-rich element cluster variations between human and mouse
    Anason S Halees
    The Biomolecular Research Program, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 36:D137-40. 2008
    ..This ultimately will help in inferring the biological consequences of ARE variation in these key animal models as opposed to humans, particularly, in relationships to the role of RNA stability in disease...
  5. pmc miR-29a inhibition normalizes HuR over-expression and aberrant AU-rich mRNA stability in invasive cancer
    Wijdan Al-Ahmadi
    Molecular Biomedicine Programme, King Faisal Specialist Hospital and Research Centre, Riyadh, Saudi Arabia
    J Pathol 230:28-38. 2013
    ..This study demonstrates that an aberrant ARE-mediated pathway in invasive cancer can be normalized by targeting the aberrant and functionally coupled TTP-HuR axis, indicating a potential therapeutic approach...
  6. pmc Regulation of p21/CIP1/WAF-1 mediated cell-cycle arrest by RNase L and tristetraprolin, and involvement of AU-rich elements
    Latifa Al-Haj
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Centre, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 40:7739-52. 2012
    ..The p21 mRNA half-life was prolonged in TTP(-/-) MEFs. The TTP regulation of p21 mRNA decay required functional AU-rich elements. Thus, we demonstrate a novel mechanism of regulating G(1) growth arrest by an RNase L-TTP-p21 axis...
  7. pmc UU/UA dinucleotide frequency reduction in coding regions results in increased mRNA stability and protein expression
    Maher Al-Saif
    Department of Molecular Biomedicine, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia
    Mol Ther 20:954-9. 2012
    ..The results indicate the efficacy of the described rational approach to formulate a general scheme for boosting recombinant protein production in mammalian cells...
  8. pmc Identification of a set of KSRP target transcripts upregulated by PI3K-AKT signaling
    Tina Ruggiero
    Istituto Nazionale per la Ricerca sul Cancro IST, 16132 Genova, Italy
    BMC Mol Biol 8:28. 2007
    ..We have recently described that phosphatidylinositol 3-kinase/AKT (PI3K-AKT) activation induces stabilization and accumulation of the labile beta-catenin mRNA through an impairment of KSRP function...
  9. pmc Cloning-free regulated monitoring of reporter and gene expression
    Latifa Al-Haj
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    BMC Mol Biol 10:20. 2009
    ..Construction of transcriptional reporter vectors, including use of cis-acting sequences, requires cloning and time-demanding manipulations, particularly with introduced mutations...
  10. pmc Post-transcriptional control of the interferon system
    Khalid S A Khabar
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, P3354, MBC 03, Takhasusi Road, Riyadh 11211, Saudi Arabia
    Biochimie 89:761-9. 2007
    ..Such controls offer a fine tuning mechanism for efficient and rapid response and as a negative feedback control in IFN biosynthesis and response...
  11. ncbi Rapid transit in the immune cells: the role of mRNA turnover regulation
    Khalid S A Khabar
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, P3354, MBC 03, Riyadh 11211, Saudi Arabia
    J Leukoc Biol 81:1335-44. 2007
    ..The emphasis of this review is on current work that deals with the regulation of mRNA decay during innate immunity against microbes and T cell activation as a model of the adaptive response...
  12. pmc The alpha chemokine, interleukin 8, inhibits the antiviral action of interferon alpha
    K S Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia 11211, USA
    J Exp Med 186:1077-85. 1997
    ..Understanding pathways that antagonize IFN action may lead to novel approaches to potentiate endogenous and therapeutic IFN...
  13. ncbi The AU-rich transcriptome: more than interferons and cytokines, and its role in disease
    Khalid S A Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    J Interferon Cytokine Res 25:1-10. 2005
    ..Thus, the heterogeneity in AREs, their signaling pathways, and effector proteins contribute to the functional diversity of the ARE gene family, which encompasses more than IFNs and cytokines...
  14. ncbi AU-rich transient response transcripts in the human genome: expressed sequence tag clustering and gene discovery approach
    Khalid S A Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Center, P O Box 3354, MBC 03 67, Riyadh 11211, Saudi Arabia
    Genomics 85:165-75. 2005
    ..The described approaches led to the finding of more than 1500 ARE genes in the human genome. In particular, "hidden" ARE mRNAs and alternative forms due to 3'UTR completeness, variant polyadenylation, and splicing were uncovered...
  15. ncbi Effect of deficiency of the double-stranded RNA-dependent protein kinase, PKR, on antiviral resistance in the presence or absence of ribonuclease L: HSV-1 replication is particularly sensitive to deficiency of the major IFN-mediated enzymes
    K S Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia
    J Interferon Cytokine Res 20:653-9. 2000
    ..These results supported the existence of novel pathways aimed toward specific stages of the virus life cycle...
  16. ncbi Expressed gene clusters associated with cellular sensitivity and resistance towards anti-viral and anti-proliferative actions of interferon
    Khalid S A Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    J Mol Biol 342:833-46. 2004
    ..Use of rationally designed microarray experiments in IFN biology yielded informative clusters that may provide candidate genes for diagnostic or for evaluation of therapeutic possibilities...
  17. pmc Selection of AU-rich transiently expressed sequences: reversal of cDNA abundance
    Khalid S A Khabar
    Interferon and Cytokine Research Unit, Department of Biological and Medical Research, Bioinformatics Section, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    RNA 10:747-53. 2004
    ..The ability to reverse the abundance of housekeeping and other highly expressed genes toward ARE genes facilitates the discovery and study of rare early response and transiently expressed genes...
  18. ncbi RNase L mediates transient control of the interferon response through modulation of the double-stranded RNA-dependent protein kinase PKR
    Khalid S A Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    J Biol Chem 278:20124-32. 2003
    ..These results suggest a role for RNase L in the transient control of the IFN response and possibly of other cytokine and stress responses...
  19. ncbi Circulating endotoxin and cytokines after cardiopulmonary bypass: differential correlation with duration of bypass and systemic inflammatory response/multiple organ dysfunction syndromes
    K S Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia
    Clin Immunol Immunopathol 85:97-103. 1997
    ..Certain clinical complications were associated with specific cytokines. Understanding the role of cytokinemia in SIRS/MODS may lead to better prognostic assessment and therapeutic modalities...
  20. pmc Assessment of reliability of microarray data and estimation of signal thresholds using mixture modeling
    Musa H Asyali
    Department of Biostatistics, Epidemiology, and Scientific Computing, King Faisal Specialist Hospital and Research Center, PO Box 3354, MBC 03, Riyadh, 11211, Saudi Arabia
    Nucleic Acids Res 32:2323-35. 2004
    ..Elimination of unreliable signal intensities in microarray data should contribute to the quality of microarray data including reproducibility and reliability of gene expression ratios...
  21. pmc A versatile ribosomal protein promoter-based reporter system for selective assessment of RNA stability and post-transcriptional control
    Edward Hitti
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia 11211
    RNA 16:1245-55. 2010
    ..The described approach provides enhanced versatility and suitability for selective post-transcriptional assessment with or without transcriptional induction...
  22. pmc Alternative polyadenylation variants of the RNA binding protein, HuR: abundance, role of AU-rich elements and auto-Regulation
    Wijdan Al-Ahmadi
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 37:3612-24. 2009
    ..The study shows that the HuR gene codes for several polyadenylation variants differentially regulated by AU-rich elements, and demonstrates an auto-regulatory role of HuR...
  23. pmc ARED 2.0: an update of AU-rich element mRNA database
    Tala Bakheet
    Department of Biostatistics, Epidemiology, and Scientific Computing Bioinformatics Section, Riyadh 11211, Saudi Arabia
    Nucleic Acids Res 31:421-3. 2003
    ..kfshrc.edu.sa/ared, with a new querying system that allows searching ARE-mRNAs by any public database identifier or name. The ARED website also contains relevant links to uses for the ARED...
  24. ncbi Hepatitis C virus-host interactions: the NS5A protein and the interferon/chemokine systems
    Khalid S A Khabar
    Department of Biological and Medical Research, King Faisal Specialist Hospital and Research Centre, Riyadh, Kingdom of Saudi Arabia
    J Interferon Cytokine Res 22:1005-12. 2002
    ..In this review, we focus on the HCV nonstructural 5A (NS5A) protein, a model for diverse virus-host interactions, and highlight the interaction of viruses, including HCV, with the chemokine system...
  25. ncbi Bioinformatics and experimental derivation of an efficient hybrid 3' untranslated region and use in expression active linear DNA with minimum poly(A) region
    Fahad Al-Zoghaibi
    Program in BioMolecular Research, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia
    Gene 391:130-9. 2007
    ..The efficient 3' UTR may find use in enhanced recombinant protein production and also provide a simplified tool for generation of expression active linear DNA...
  26. pmc Green fluorescent protein reporter system with transcriptional sequence heterogeneity for monitoring the interferon response
    Linah Mahmoud
    P3354, MBC 03, Riyadh 11211, Saudi Arabia
    J Virol 85:9268-75. 2011
    ..This information should serve as a resource in selecting specific reporters for sensing nonself ligands...
  27. ncbi Soluble tumor necrosis factor receptor p55 predicts cytokinemia and systemic inflammatory response after cardiopulmonary bypass
    Mahmoud el-Barbary
    Department of Cardiovascular Diseases, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia
    Crit Care Med 30:1712-6. 2002
    ..The predictive value of soluble TNF receptor is assessed herein...
  28. pmc Oncogenic Ras and transforming growth factor-beta synergistically regulate AU-rich element-containing mRNAs during epithelial to mesenchymal transition
    Cindy L Kanies
    Department of Surgery, Vanderbilt University Medical Center, D 4316 Medical Center North, Nashville, TN 37232 2730, USA
    Mol Cancer Res 6:1124-36. 2008
    ....
  29. ncbi Patterns of coordinate down-regulation of ARE-containing transcripts following immune cell activation
    Arvind Raghavan
    Department of Microbiology, University of Minnesota, 420 Delaware Street, SE, MMC 196, Minneapolis, MN 55455, USA
    Genomics 84:1002-13. 2004
    ..Our results suggest that ARE-mediated mRNA decay plays an important role in the precisely coordinated down-regulation of gene expression following immune cell activation...
  30. pmc p38 Mitogen-activated protein kinase-dependent and -independent signaling of mRNA stability of AU-rich element-containing transcripts
    Mathias A E Frevel
    Department of Cancer Biology, Lerner Research Institute, Cleveland Clinic Foundation, Cleveland, Ohio 44195, USA
    Mol Cell Biol 23:425-36. 2003
    ..Finally, the identification of the p38-dependent upstream activator MAP kinase kinase 6 as a member of this group identifies a positive feedback loop regulating macrophage signaling via p38 MAP kinase-dependent transcript stabilization...
  31. ncbi Heterogeneity in control of mRNA stability by AU-rich elements
    Julie Tebo
    Departments of Immunology and Cancer Biology, Cleveland Clinic Foundation, Cleveland, Ohio 44195, USA
    J Biol Chem 278:12085-93. 2003
    ..Moreover, IL-1alpha promotes stabilization of unstable mRNAs through distinct mechanistic pathways that distinguish between specific mRNA sequences...
  32. pmc Regulation of CXCL-8 (interleukin-8) induction by double-stranded RNA signaling pathways during hepatitis C virus infection
    Jessica Wagoner
    Department of Laboratory Medicine, University of Washington, Virology 359690, 325 9th Avenue, Seattle, WA 98104 2499, USA
    J Virol 81:309-18. 2007
    ....
  33. ncbi Stability of CXCL-8 and related AU-rich mRNAs in the context of hepatitis C virus replication in vitro
    Jamison Green
    Department of Laboratory Medicine, University of Washington, Seattle, 98104 2499, USA
    J Infect Dis 193:802-11. 2006
    ..CXCL-8 mRNA stability was, therefore, investigated in the context of HCV replication in 4 replicon cell lines, Huh7 and Huh7.5 cells, and primary human fetal hepatocytes...
  34. ncbi Impact of targeting the adenine- and uracil-rich element of bcl-2 mRNA with oligoribonucleotides on apoptosis, cell cycle, and neuronal differentiation in SHSY-5Y cells
    Laura Papucci
    Department of Experimental Pathology and Oncology, University of Florence, Viale G B Morgagni 50, 50134 Florence, Italy
    Mol Pharmacol 73:498-508. 2008
    ....