Cloning-free regulated monitoring of reporter and gene expression

BMC Molecular Biology

Volumn 10, Issue , 2009, Pages

  al Haj, Latifa ^a   Al Ahmadi, Wijdan ^a   Al Saif, Maher ^a   Demirkaya, Omer ^a   Khabar, Khalid S A ^a  

^a KING FAISAL SPECIALIST HOSPITAL AND RESEARCH CENTER   (Saudi Arabia)

Author keywords

[No Author keywords available]

Indexed keywords

IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; INTERFERON; INTERLEUKIN 1ALPHA; RIBOSOME PROTEIN; BACTERIAL PROTEIN; CARRIER PROTEIN; TET O RESISTANCE PROTEIN, BACTERIA;

ARTICLE; CONTROLLED STUDY; GENE ACTIVATION; GENE CASSETTE; GENE CONSTRUCT; GENE CONTROL; GENE CONVERSION; GENE EXPRESSION; GENE REPRESSION; GENETIC TRANSCRIPTION; HUMAN; HUMAN CELL; INFLAMMATION; MOLECULAR CLONING; OPERON; POLYMERASE CHAIN REACTION; PROMOTER REGION; REPORTER GENE; TETRACYCLINE RESISTANCE OPERON; TRANSCRIPTION REGULATION; BIOLOGICAL MODEL; CELL LINE; GENE EXPRESSION REGULATION; GENETICS;

BACTERIAL PROTEINS; CARRIER PROTEINS; CELL LINE; CLONING, MOLECULAR; GENE EXPRESSION REGULATION; GENES, REPORTER; HUMANS; MODELS, GENETIC;

EID: 63749088626     PISSN: None     EISSN: 14712199     Source Type: Journal    
DOI: 10.1186/1471-2199-10-20     Document Type: Article

References (26)

1. Calzado MA Bacher S Schmitz ML NF-kappaB inhibitors for the treatment of inflammatory diseases and cancer Current medicinal chemistry 2007, 14(3):367-376 17305539 10.2174/092986707779941113
2. Gossen M Bujard H Studying gene function in eukaryotes by conditional gene inactivation Annual review of genetics 2002, 36:153-173 12429690 10.1146/annurev.genet.36.041002.120114
3. Blanchette M Bataille AR Chen X Poitras C Laganiere J Lefebvre C Deblois G Giguere V Ferretti V Bergeron D et al Genome-wide computational prediction of transcriptional regulatory modules reveals new insights into human gene expression Genome Res 2006, 16(5):656-668 16606704 10.1101/gr.4866006 1457048
4. Elnitski L Jin VX Farnham PJ Jones SJ Locating mammalian transcription factor binding sites: A survey of computational and experimental techniques Genome Res 2006, 16(12):1455-1464 17053094 10.1101/gr.4140006
5. Jegga AG Gupta A Gowrisankar S Deshmukh MA Connolly S Finley K Aronow BJ CisMols Analyzer: Identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes Nucleic Acids Res 2005, 33 Web Server W408 411 15980500 10.1093/nar/ gki486 1160246
6. Romanov S Medvedev A Gambarian M Poltoratskaya N Moeser M Medvedeva L Gambarian M Diatchenko L Makarov S Homogeneous reporter system enables quantitative functional assessment of multiple transcription factors Nat Methods 2008, 5(3):253-260 18297081 10.1038/nmeth.1186
7. Shao W Wei HJ Qiao JY Zhao YC Sun YM Zhou YX Cheng J Parallel profiling of active transcription factors using an oligonucleotide array-based transcription factor assay (OATFA) J Proteome Res 2005, 4(4):1451-1456 16083299 10.1021/pr050053l
8. Foster R Gedamu L Functional analyses of promoter elements responsible for the differential expression of the human metallothionein (MT)-IG and MT-IF genes J Biol Chem 1991, 266(15):9866-9875 1903400
9. Grandvaux N Servant MJ tenOever B Sen GC Balachandran S Barber GN Lin R Hiscott J Transcriptional profiling of interferon regulatory factor 3 target genes: Direct involvement in the regulation of interferon-stimulated genes Journal of virology 2002, 76(11):5532-5539 11991981 10.1128/JVI.76.11.5532-5539.2002 137057
10. Falvo JV Parekh BS Lin CH Fraenkel E Maniatis T Assembly of a functional beta interferon enhanceosome is dependent on ATF-2-c-jun heterodimer orientation Mol Cell Biol 2000, 20(13):4814-4825 10848607 10.1128/ MCB.20.13.4814-4825.2000 85927
11. Yoneyama M Kikuchi M Natsukawa T Shinobu N Imaizumi T Miyagishi M Taira K Akira S Fujita T The RNA helicase RIG-I has an essential function in double-stranded RNA-induced innate antiviral responses Nature immunology 2004, 5(7):730-737 15208624 10.1038/ni1087
12. Wang W Cassidy J Constitutive nuclear factor-kappa B mRNA, protein overexpression and enhanced DNA-binding activity in thymidylate synthase inhibitor-resistant tumour cells Br J Cancer 2003, 88(4):624-629 12592379 10.1038/sj.bjc.6600753
13. Lai C Jiang X Li X Development of luciferase reporter-based cell assays Assay Drug Dev Technol 2006, 4(3):307-315 16834536 10.1089/adt.2006.4.307
14. Li X Zhao X Fang Y Jiang X Duong T Fan C Huang CC Kain SR Generation of destabilized green fluorescent protein as a transcription reporter J Biol Chem 1998, 273(52):34970-34975 9857028 10.1074/jbc.273.52.34970
15. Voon DC Subrata LS Baltic S Leu MP Whiteway JM Wong A Knight SA Christiansen FT Daly JM Use of mRNA- and protein-destabilizing elements to develop a highly responsive reporter system Nucleic Acids Res 2005, 33(3):e27 15716309 10.1093/nar/gni030 549429
16. Hiscott J Convergence of the NF-kappaB and IRF pathways in the regulation of the innate antiviral response Cytokine Growth Factor Rev 2007, 18(5-6):483-490 17706453 10.1016/j.cytogfr.2007.06.002
17. Khabar KS Al-Haj L Al-Zoghaibi F Marie M Dhalla M Polyak SJ Williams BR Expressed gene clusters associated with cellular sensitivity and resistance towards anti-viral and anti-proliferative actions of interferon J Mol Biol 2004, 342(3):833-846 15342240 10.1016/ j.jmb.2004.07.065
18. Al-Zoghaibi F Ashour T Al-Ahmadi W Abulleef H Demirkaya O Khabar KS Bioinformatics and experimental derivation of an efficient hybrid 3′ untranslated region and use in expression active linear DNA with minimum poly(A) region Gene 2007, 391(1-2):130-139 17258873 10.1016/ j.gene.2006.12.013
19. Longo D Hasty J Dynamics of single-cell gene expression Mol Syst Biol 2006, 2:64 17130866 10.1038/msb4100110 1682029
20. Isalan M Santori MI Gonzalez C Serrano L Localized transfection on arrays of magnetic beads coated with PCR products Nat Methods 2005, 2(2):113-118 15782208 10.1038/nmeth732
21. Hofman CR Dileo JP Li Z Li S Huang L Efficient in vivo gene transfer by PCR amplified fragment with reduced inflammatory activity Gene therapy 2001, 8(1):71-74 11402304 10.1038/sj.gt.3301373
22. Rosfjord E Lamb K Rizzino A Cryptic promoter activity within the backbone of a plasmid commonly used to prepare promoter/reporter gene constructs In Vitro Cell Dev Biol Anim 1994, 30A(7):477-481 7952517 10.1007/BF02631317
23. Lim HM Lewis DE Lee HJ Liu M Adhya S Effect of varying the supercoiling of DNA on transcription and its regulation Biochemistry 2003, 42(36):10718-10725 12962496 10.1021/bi030110t
24. Banerjee S Spector DJ Differential effect of DNA supercoiling on transcription of adenovirus genes in vitro The Journal of general virology 1992, 73(Pt 10):2631-2638 1402805 10.1099/0022-1317-73-10-2631
25. Demirkaya O Smoothing Impulsive Noise Using Nonlinear Diffusion Filtering Lecture Notes in Computer Science Springer-Verlag Heidelberg Sonka MK, Ioannis A, Kybic 2004 Jan 111-122
26. Demirkaya O Asyali MH Shoukri MM Segmentation of cDNA microarray spots using markov random field modeling Bioinformatics 2005, 21(13):2994-3000 15840703 10.1093/bioinformatics/bti455