| | Other Issues: previous | next | latest | archiveResearch Articles A direct repeat of E-box-like elements is required for cell-autonomous circadian rhythm of clock genes Yasukazu Nakahata, Mayumi Yoshida, Atsuko Takano, Haruhiko Soma, Takuro Yamamoto, Akio Yasuda, Toru Nakatsu, and Toru Takumi BMC Mol Biol. 2008; 9: 1. Published online 2008 January 4. doi: 10.1186/1471-2199-9-1.PMCID: PMC2254435 Specificity of DNA-binding by the FAX-1 and NHR-67 nuclear receptors of Caenorhabditis elegans is partially mediated via a subclass-specific P-box residue Stephen D DeMeo, Rebecca M Lombel, Melissa Cronin, Eric L Smith, Danielle R Snowflack, Kristy Reinert, Sheila Clever, and Bruce Wightman BMC Mol Biol. 2008; 9: 2. Published online 2008 January 7. doi: 10.1186/1471-2199-9-2.PMCID: PMC2225407 The Paf1 complex promotes displacement of histones upon rapid induction of transcription by RNA polymerase II Heather A Marton and Stephen Desiderio BMC Mol Biol. 2008; 9: 4. Published online 2008 January 14. doi: 10.1186/1471-2199-9-4.PMCID: PMC2265735 Regulation of mouse Scgb3a1 gene expression by NF-Y and association of CpG methylation with its tissue-specific expression Takeshi Tomita and Shioko Kimura BMC Mol Biol. 2008; 9: 5. Published online 2008 January 14. doi: 10.1186/1471-2199-9-5.PMCID: PMC2266941 Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis Hailing Jin, Vladimir Vacic, Thomas Girke, Stefano Lonardi, and Jian-Kang Zhu BMC Mol Biol. 2008; 9: 6. Published online 2008 January 14. doi: 10.1186/1471-2199-9-6.PMCID: PMC2262095 Substrate specificity of new methyl-directed DNA endonuclease GlaI Galina V Tarasova, Tatiana N Nayakshina, and Sergey KH Degtyarev BMC Mol Biol. 2008; 9: 7. Published online 2008 January 15. doi: 10.1186/1471-2199-9-7.PMCID: PMC2257971 The human SIN3B corepressor forms a nucleolar complex with leukemia-associated ETO homologues Rakesh Singh Dhanda, Sofia Rondin Lindberg, and Inge Olsson BMC Mol Biol. 2008; 9: 8. Published online 2008 January 19. doi: 10.1186/1471-2199-9-8.PMCID: PMC2266940 Selection and validation of a set of reliable reference genes for quantitative sod gene expression analysis in C. elegans David Hoogewijs, Koen Houthoofd, Filip Matthijssens, Jo Vandesompele, and Jacques R Vanfleteren BMC Mol Biol. 2008; 9: 9. Published online 2008 January 22. doi: 10.1186/1471-2199-9-9.PMCID: PMC2254638 Alternative splicing and differential subcellular localization of the rat FGF antisense gene product Shuo Cheng Zhang, Kimberley A MacDonald, Mark Baguma-Nibasheka, Laurette Geldenhuys, Alan G Casson, and Paul R Murphy BMC Mol Biol. 2008; 9: 10. Published online 2008 January 23. doi: 10.1186/1471-2199-9-10.PMCID: PMC2254637 Ror2 modulates the canonical Wnt signaling in lung epithelial cells through cooperation with Fzd2 Changgong Li, Hongyan Chen, Lingyan Hu, Yiming Xing, Tomoyo Sasaki, Maria F Villosis, John Li, Michiru Nishita, Yasuhiro Minami, and Parviz Minoo BMC Mol Biol. 2008; 9: 11. Published online 2008 January 23. doi: 10.1186/1471-2199-9-11.PMCID: PMC2254434 Differential regulation of the two transcriptional activation domains of the coiled-coil coactivator CoCoA by sumoylation Catherine K Yang, Jeong Hoon Kim, David K Ann, and Michael R Stallcup BMC Mol Biol. 2008; 9: 12. Published online 2008 January 25. doi: 10.1186/1471-2199-9-12.PMCID: PMC2263068 Analysis of the transcriptional activity of endogenous NFAT5 in primary cells using transgenic NFAT-luciferase reporter mice Beatriz Morancho, Jordi Minguillón, Jeffery D Molkentin, Cristina López-Rodríguez, and Jose Aramburu BMC Mol Biol. 2008; 9: 13. Published online 2008 January 25. doi: 10.1186/1471-2199-9-13.PMCID: PMC2262899 Simultaneous targeted exchange of two nucleotides by single-stranded oligonucleotides clusters within a region of about fourteen nucleotides Heike Hegele, Matthias Wuepping, Caroline Ref, Oliver Kenner, and Dieter Kaufmann BMC Mol Biol. 2008; 9: 14. Published online 2008 January 28. doi: 10.1186/1471-2199-9-14.PMCID: PMC2266939 Iron-dependent degradation of IRP2 requires its C-terminal region and IRP structural integrity Jian Wang, Guohua Chen, Julie Lee, and Kostas Pantopoulos BMC Mol Biol. 2008; 9: 15. Published online 2008 January 28. doi: 10.1186/1471-2199-9-15.PMCID: PMC2267205 Expression of yeast lipid phosphatase Sac1p is regulated by phosphatidylinositol-4-phosphate Andreas Knödler, Gerlinde Konrad, and Peter Mayinger BMC Mol Biol. 2008; 9: 16. Published online 2008 January 28. doi: 10.1186/1471-2199-9-16.PMCID: PMC2258305 Reference genes for normalization of gene expression studies in human osteoarthritic articular cartilage Manuel Pombo-Suarez, Manuel Calaza, Juan J Gomez-Reino, and Antonio Gonzalez BMC Mol Biol. 2008; 9: 17. Published online 2008 January 29. doi: 10.1186/1471-2199-9-17.PMCID: PMC2248200 Housekeeping genes for quantitative expression studies in the three-spined stickleback Gasterosteus aculeatus Sascha Hibbeler, Joern P Scharsack, and Sven Becker BMC Mol Biol. 2008; 9: 18. Published online 2008 January 29. doi: 10.1186/1471-2199-9-18.PMCID: PMC2254436 Molecular characterization and expression analysis of five different elongation factor 1 alpha genes in the flatfish Senegalese sole (Solea senegalensis Kaup): Differential gene expression and thyroid hormones dependence during metamorphosis Carlos Infante, Esther Asensio, José Pedro Cañavate, and Manuel Manchado BMC Mol Biol. 2008; 9: 19. Published online 2008 January 30. doi: 10.1186/1471-2199-9-19.PMCID: PMC2270864 Comparative genomic analysis of the arthropod muscle myosin heavy chain genes allows ancestral gene reconstruction and reveals a new type of 'partially' processed pseudogene Florian Odronitz and Martin Kollmar BMC Mol Biol. 2008; 9: 21. Published online 2008 February 6. doi: 10.1186/1471-2199-9-21.PMCID: PMC2257972 A novel mutant of the Sup35 protein of Saccharomyces cerevisiae defective in translation termination and in GTPase activity still supports cell viability Céline Fabret, Bruno Cosnier, Sergey Lekomtsev, Sylvie Gillet, Isabelle Hatin, Pierre Le Maréchal, and Jean Pierre Rousset BMC Mol Biol. 2008; 9: 22. Published online 2008 February 11. doi: 10.1186/1471-2199-9-22.PMCID: PMC2259375 Ligand-induced sequestering of branchpoint sequence allows conditional control of splicing Dong-Suk Kim, Veronica Gusti, Kenneth J Dery, and Rajesh K Gaur BMC Mol Biol. 2008; 9: 23. Published online 2008 February 12. doi: 10.1186/1471-2199-9-23.PMCID: PMC2275289 hMMS2 serves a redundant role in human PCNA polyubiquitination Jan Brun, Roland Chiu, Katherine Lockhart, Wei Xiao, Bradly G Wouters, and Douglas A Gray BMC Mol Biol. 2008; 9: 24. Published online 2008 February 19. doi: 10.1186/1471-2199-9-24.PMCID: PMC2263069 The Mre11 protein interacts with both Rad50 and the HerA bipolar helicase and is recruited to DNA following gamma irradiation in the archaeon Sulfolobus acidocaldarius Achim Quaiser, Florence Constantinesco, Malcolm F White, Patrick Forterre, and Christiane Elie BMC Mol Biol. 2008; 9: 25. Published online 2008 February 22. doi: 10.1186/1471-2199-9-25.PMCID: PMC2288612 Characterization of human mesenchymal stem cell secretome at early steps of adipocyte and osteoblast differentiation Chiara Chiellini, Olivia Cochet, Luc Negroni, Michel Samson, Marjorie Poggi, Gérard Ailhaud, Marie-Christine Alessi, Christian Dani, and Ez-Zoubir Amri BMC Mol Biol. 2008; 9: 26. Published online 2008 February 26. doi: 10.1186/1471-2199-9-26.PMCID: PMC2279142 Essential and distinct roles of the F-box and helicase domains of Fbh1 in DNA damage repair Chikako Sakaguchi, Takashi Morishita, Hideo Shinagawa, and Takashi Hishida BMC Mol Biol. 2008; 9: 27. Published online 2008 March 3. doi: 10.1186/1471-2199-9-27.PMCID: PMC2294136 Selection of housekeeping genes for gene expression studies in larvae from flatfish using real-time PCR Carlos Infante, Makoto P Matsuoka, Esther Asensio, José Pedro Cañavate, Michael Reith, and Manuel Manchado BMC Mol Biol. 2008; 9: 28. Published online 2008 March 6. doi: 10.1186/1471-2199-9-28.PMCID: PMC2275743 Association of ATRX with pericentric heterochromatin and the Y chromosome of neonatal mouse spermatogonia Claudia Baumann, Anja Schmidtmann, Kathrin Muegge, and Rabindranath De La Fuente BMC Mol Biol. 2008; 9: 29. Published online 2008 March 13. doi: 10.1186/1471-2199-9-29.PMCID: PMC2275742 Characterization of the human DYRK1A promoter and its regulation by the transcription factor E2F1 Barbara Maenz, Paul Hekerman, Eva M Vela, Juan Galceran, and Walter Becker BMC Mol Biol. 2008; 9: 30. Published online 2008 March 26. doi: 10.1186/1471-2199-9-30.PMCID: PMC2292204 Novel forms of Paired-like homeodomain transcription factor 2 (PITX2): Generation by alternative translation initiation and mRNA splicing Pankaj Lamba, Tord A Hjalt, and Daniel J Bernard BMC Mol Biol. 2008; 9: 31. Published online 2008 March 28. doi: 10.1186/1471-2199-9-31.PMCID: PMC2330153 HMG-box domain stimulation of RAG1/2 cleavage activity is metal ion dependent Aleksei N Kriatchko, Serge Bergeron, and Patrick C Swanson BMC Mol Biol. 2008; 9: 32. Published online 2008 April 1. doi: 10.1186/1471-2199-9-32.PMCID: PMC2324110 The katG mRNA of Mycobacterium tuberculosis and Mycobacterium smegmatis is processed at its 5' end and is stabilized by both a polypurine sequence and translation initiation Claudia Sala, Francesca Forti, Francesca Magnoni, and Daniela Ghisotti BMC Mol Biol. 2008; 9: 33. Published online 2008 April 4. doi: 10.1186/1471-2199-9-33.PMCID: PMC2358910 Transcriptional profile of the homologous recombination machinery and characterization of the EhRAD51 recombinase in response to DNA damage in Entamoeba histolytica Mavil López-Casamichana, Esther Orozco, Laurence A Marchat, and César López-Camarillo BMC Mol Biol. 2008; 9: 35. Published online 2008 April 10. doi: 10.1186/1471-2199-9-35.PMCID: PMC2324109 Drosophila Uri, a PP1α binding protein, is essential for viability, maintenance of DNA integrity and normal transcriptional activity Jasmin Kirchner, Emese Vissi, Sascha Gross, Balazs Szoor, Andrey Rudenko, Luke Alphey, and Helen White-Cooper BMC Mol Biol. 2008; 9: 36. Published online 2008 April 15. doi: 10.1186/1471-2199-9-36.PMCID: PMC2346476 Gene transfer of Hodgkin cell lines via multivalent anti-CD30 scFv displaying bacteriophage Yoon-Suk A Chung, Katja Sabel, Martin Krönke, and Alexander Klimka BMC Mol Biol. 2008; 9: 37. Published online 2008 April 16. doi: 10.1186/1471-2199-9-37.PMCID: PMC2375901 The calcium channel β2 (CACNB2) subunit repertoire in teleosts Alicia M Ebert, Catherine A McAnelly, Ashok Srinivasan, Rachel Lockridge Mueller, David B Garrity, and Deborah M Garrity BMC Mol Biol. 2008; 9: 38. Published online 2008 April 17. doi: 10.1186/1471-2199-9-38.PMCID: PMC2365960 DNA demethylation-dependent enhancement of toll-like receptor-2 gene expression in cystic fibrosis epithelial cells involves SP1-activated transcription Takashi Furuta, Tsuyoshi Shuto, Shogo Shimasaki, Yuko Ohira, Mary Ann Suico, Dieter C Gruenert, and Hirofumi Kai BMC Mol Biol. 2008; 9: 39. Published online 2008 April 21. doi: 10.1186/1471-2199-9-39.PMCID: PMC2387165 DNA watermarks: A proof of concept Dominik Heider and Angelika Barnekow BMC Mol Biol. 2008; 9: 40. Published online 2008 April 21. doi: 10.1186/1471-2199-9-40.PMCID: PMC2375902 Interaction of circadian clock proteins PER2 and CRY with BMAL1 and CLOCK Sonja Langmesser, Tiziano Tallone, Alain Bordon, Sandro Rusconi, and Urs Albrecht BMC Mol Biol. 2008; 9: 41. Published online 2008 April 22. doi: 10.1186/1471-2199-9-41.PMCID: PMC2383916 Molecular characterization of senescence marker protein-30 gene promoter: Identification of repressor elements and functional nuclear factor binding sites Bandita Rath, Ravi S Pandey, Priya R Debata, Naoki Maruyama, and Prakash C Supakar BMC Mol Biol. 2008; 9: 43. Published online 2008 April 29. doi: 10.1186/1471-2199-9-43.PMCID: PMC2386801 A GATA4/WT1 cooperation regulates transcription of genes required for mammalian sex determination and differentiation Yoko Miyamoto, Hiroaki Taniguchi, Frédéric Hamel, David W Silversides, and Robert S Viger BMC Mol Biol. 2008; 9: 44. Published online 2008 April 29. doi: 10.1186/1471-2199-9-44.PMCID: PMC2387164 Characterization of two functional NKX3.1 binding sites upstream of the PCAN1 gene that are involved in the positive regulation of PCAN1 gene transcription Wenwen Liu, Pengju Zhang, Weiwen Chen, Chunxiao Yu, Fuai Cui, Feng Kong, Jianye Zhang, and Anli Jiang BMC Mol Biol. 2008; 9: 45. Published online 2008 May 4. doi: 10.1186/1471-2199-9-45.PMCID: PMC2390571 Identification of valid reference genes for the normalization of RT qPCR gene expression data in human brain tissue David TR Coulson, Simon Brockbank, Joseph G Quinn, Suzanne Murphy, Rivka Ravid, G Brent Irvine, and Janet A Johnston BMC Mol Biol. 2008; 9: 46. Published online 2008 May 6. doi: 10.1186/1471-2199-9-46.PMCID: PMC2396658 Distinct and stage specific nuclear factors regulate the expression of falcipains, Plasmodium falciparum cysteine proteases Sujatha Sunil, Virander S Chauhan, and Pawan Malhotra BMC Mol Biol. 2008; 9: 47. Published online 2008 May 14. doi: 10.1186/1471-2199-9-47.PMCID: PMC2409366 The BsaHI restriction-modification system: Cloning, sequencing and analysis of conserved motifs Robert K Neely and Richard J Roberts BMC Mol Biol. 2008; 9: 48. Published online 2008 May 14. doi: 10.1186/1471-2199-9-48.PMCID: PMC2413257 Exercise induced stress in horses: Selection of the most stable reference genes for quantitative RT-PCR normalization Katia Cappelli, Michela Felicetti, Stefano Capomaccio, Giacomo Spinsanti, Maurizio Silvestrelli, and Andrea Verini Supplizi BMC Mol Biol. 2008; 9: 49. Published online 2008 May 19. doi: 10.1186/1471-2199-9-49.PMCID: PMC2412902 Comparative in silico analysis identifies bona fide MyoD binding sites within the Myocyte Stress 1 gene promoter Samir Ounzain, Caroline S Dacwag, Nilesh J Samani, Anthony N Imbalzano, and Nelson W Chong BMC Mol Biol. 2008; 9: 50. Published online 2008 May 19. doi: 10.1186/1471-2199-9-50.PMCID: PMC2408591 Characterization and expression patterns of a membrane-bound trehalase from Spodoptera exigua Bin Tang, Xiaofei Chen, Yang Liu, Honggang Tian, Jian Liu, Jian Hu, Weihua Xu, and Wenqing Zhang BMC Mol Biol. 2008; 9: 51. Published online 2008 May 20. doi: 10.1186/1471-2199-9-51.PMCID: PMC2424068 IRES-mediated translation of the carboxy-terminal domain of the horizontal cell specific connexin Cx55.5 in vivo and in vitro Mahboob Ul-Hussain, Georg Zoidl, Jan Klooster, Maarten Kamermans, and Rolf Dermietzel BMC Mol Biol. 2008; 9: 52. Published online 2008 May 27. doi: 10.1186/1471-2199-9-52.PMCID: PMC2435236 Selection of reference genes for quantitative real-time PCR in a rat asphyxial cardiac arrest model Kristina Langnaese, Robin John, Hannes Schweizer, Uwe Ebmeyer, and Gerburg Keilhoff BMC Mol Biol. 2008; 9: 53. Published online 2008 May 28. doi: 10.1186/1471-2199-9-53.PMCID: PMC2430208 LTR retrotransposons and the evolution of dosage compensation in Drosophila Lilya V Matyunina, Nathan J Bowen, and John F McDonald BMC Mol Biol. 2008; 9: 55. Published online 2008 June 4. doi: 10.1186/1471-2199-9-55.PMCID: PMC2443393 Identification of a candidate alternative promoter region of the human Bcl2L11 (Bim) gene Margherita Gaviraghi, Andrea Caricasole, Chiara Costanzo, Daniela Diamanti, Mario Dandrea, Massimo Donadelli, Aldo Scarpa, and Marta Palmieri BMC Mol Biol. 2008; 9: 56. Published online 2008 June 12. doi: 10.1186/1471-2199-9-56.PMCID: PMC2442123 TATA binding protein associated factor 3 (TAF3) interacts with p53 and inhibits its function Orsolya Bereczki, Zsuzsanna Ujfaludi, Norbert Pardi, Zita Nagy, Laszlo Tora, Imre M Boros, and Eva Balint BMC Mol Biol. 2008; 9: 57. Published online 2008 June 12. doi: 10.1186/1471-2199-9-57.PMCID: PMC2441632 Systemic RNAi mediated gene silencing in the anhydrobiotic nematode Panagrolaimus superbus Adam J Shannon, Trevor Tyson, Ilona Dix, Jacqueline Boyd, and Ann M Burnell BMC Mol Biol. 2008; 9: 58. Published online 2008 June 19. doi: 10.1186/1471-2199-9-58.PMCID: PMC2453295 Validation of internal control for gene expression study in soybean by quantitative real-time PCR Bo Jian, Bin Liu, Yurong Bi, Wensheng Hou, Cunxiang Wu, and Tianfu Han BMC Mol Biol. 2008; 9: 59. Published online 2008 June 23. doi: 10.1186/1471-2199-9-59.PMCID: PMC2443375 Off-target effects of siRNA specific for GFP Cordula Tschuch, Angela Schulz, Armin Pscherer, Wiebke Werft, Axel Benner, Agnes Hotz-Wagenblatt, Leticia Serra Barrionuevo, Peter Lichter, and Daniel Mertens BMC Mol Biol. 2008; 9: 60. Published online 2008 June 24. doi: 10.1186/1471-2199-9-60.PMCID: PMC2443166 Phosphorylation at Ser473 regulates heterochromatin protein 1 binding and corepressor function of TIF1beta/KAP1 Chiung-Wen Chang, Han-Yi Chou, Yu-Sheng Lin, Kuo-Hsiang Huang, Ching-Jin Chang, Tsui-Chun Hsu, and Sheng-Chung Lee BMC Mol Biol. 2008; 9: 61. Published online 2008 July 1. doi: 10.1186/1471-2199-9-61.PMCID: PMC2474647 Housekeeping while brain's storming Validation of normalizing factors for gene expression studies in a murine model of traumatic brain injury Hervé Rhinn, Catherine Marchand-Leroux, Nicole Croci, Michel Plotkine, Daniel Scherman, and Virginie Escriou BMC Mol Biol. 2008; 9: 62. Published online 2008 July 8. doi: 10.1186/1471-2199-9-62.PMCID: PMC2500043 Quantification of mRNA in single cells and modelling of RT-qPCR induced noise Martin Bengtsson, Martin Hemberg, Patrik Rorsman, and Anders Ståhlberg BMC Mol Biol. 2008; 9: 63. Published online 2008 July 17. doi: 10.1186/1471-2199-9-63.PMCID: PMC2483285 Genomic actions of 1,25-dihydroxyvitamin D3 on insulin receptor gene expression, insulin receptor number and insulin activity in the kidney, liver and adipose tissue of streptozotocin-induced diabetic rats Consuelo Calle, Begoña Maestro, and Moisés García-Arencibia BMC Mol Biol. 2008; 9: 65. Published online 2008 July 18. doi: 10.1186/1471-2199-9-65.PMCID: PMC2533347 Statistical modelling of transcript profiles of differentially regulated genes Daniel C Eastwood, Andrew Mead, Martin J Sergeant, and Kerry S Burton BMC Mol Biol. 2008; 9: 66. Published online 2008 July 23. doi: 10.1186/1471-2199-9-66.PMCID: PMC2525656 Expression profiles of the pluripotency marker gene POU5F1 and validation of reference genes in rabbit oocytes and preimplantation stage embryos Solomon Mamo, Arpad Baji Gal, Zsuzsanna Polgar, and Andras Dinnyes BMC Mol Biol. 2008; 9: 67. Published online 2008 July 28. doi: 10.1186/1471-2199-9-67.PMCID: PMC2507718 Optical mapping discerns genome wide DNA methylation profiles Gene E Ananiev, Steve Goldstein, Rod Runnheim, Dan K Forrest, Shiguo Zhou, Konstantinos Potamousis, Chris P Churas, Veit Bergendahl, James A Thomson, and David C Schwartz BMC Mol Biol. 2008; 9: 68. Published online 2008 July 30. doi: 10.1186/1471-2199-9-68.PMCID: PMC2516518 PSMB2 and RPL32 are suitable denominators to normalize gene expression profiles in bronchoalveolar cells Eva Kriegova, Arsen Arakelyan, Regina Fillerova, Jaromir Zatloukal, Frantisek Mrazek, Zdenka Navratilova, Vitezslav Kolek, Roland M du Bois, and Martin Petrek BMC Mol Biol. 2008; 9: 69. Published online 2008 July 31. doi: 10.1186/1471-2199-9-69.PMCID: PMC2529339 In vivo analysis of Caenorhabditis elegans noncoding RNA promoter motifs Tiantian Li, Housheng He, Yunfei Wang, Haixia Zheng, Geir Skogerbø, and Runsheng Chen BMC Mol Biol. 2008; 9: 71. Published online 2008 August 5. doi: 10.1186/1471-2199-9-71.PMCID: PMC2527325 Analysis of the piggyBac transposase reveals a functional nuclear targeting signal in the 94 c-terminal residues James H Keith, Tresa S Fraser, and Malcolm J Fraser, Jr BMC Mol Biol. 2008; 9: 72. Published online 2008 August 11. doi: 10.1186/1471-2199-9-72.PMCID: PMC2532691 Mutational analysis of highly conserved aspartate residues essential to the catalytic core of the piggyBac transposase James H Keith, Cheryl A Schaeper, Tresa S Fraser, and Malcolm J Fraser, Jr BMC Mol Biol. 2008; 9: 73. Published online 2008 August 11. doi: 10.1186/1471-2199-9-73.PMCID: PMC2533014 Differential expression of the TFIIIB subunits Brf1 and Brf2 in cancer cells Stephanie Cabarcas, Joby Jacob, Ingrid Veras, and Laura Schramm BMC Mol Biol. 2008; 9: 74. Published online 2008 August 12. doi: 10.1186/1471-2199-9-74.PMCID: PMC2533013 Evaluation of suitable reference genes for gene expression studies in bovine muscular tissue Raquel Pérez, Isabel Tupac-Yupanqui, and Susana Dunner BMC Mol Biol. 2008; 9: 79. Published online 2008 September 11. doi: 10.1186/1471-2199-9-79.PMCID: PMC2561043 Sense and antisense OsDof12 transcripts in rice Dejun Li, Chunhua Yang, Xiaobing Li, Guobiao Ji, and Lihuang Zhu BMC Mol Biol. 2008; 9: 80. Published online 2008 September 17. doi: 10.1186/1471-2199-9-80.PMCID: PMC2576344 Regulation of expression of two LY-6 family genes by intron retention and transcription induced chimerism Vincenzo Calvanese, Meera Mallya, R Duncan Campbell, and Begoña Aguado BMC Mol Biol. 2008; 9: 81. Published online 2008 September 25. doi: 10.1186/1471-2199-9-81.PMCID: PMC2562388 Pioglitazone retrieves hepatic antioxidant DNA repair in a mice model of high fat diet Pi-Jung Hsiao, Tusty-Jiuan Hsieh, Kung-Kai Kuo, Wei-Wen Hung, Kun-Bow Tsai, Ching-Hsiu Yang, Ming-Lung Yu, and Shyi-Jang Shin BMC Mol Biol. 2008; 9: 82. Published online 2008 September 26. doi: 10.1186/1471-2199-9-82.PMCID: PMC2565677 Identification and characterization of CCAAT/Enhancer Binding proteindelta (C/EBPdelta) target genes in G0 growth arrested mammary epithelial cells Yingjie Zhang, Tong Liu, Pearlly Yan, Tim Huang, and Jim DeWille BMC Mol Biol. 2008; 9: 83. Published online 2008 October 1. doi: 10.1186/1471-2199-9-83.PMCID: PMC2576343 Mutant huntingtin activates Nrf2-responsive genes and impairs dopamine synthesis in a PC12 model of Huntington's disease Willeke MC van Roon-Mom, Barry A Pepers, Peter AC 't Hoen, Carola ACM Verwijmeren, Johan T den Dunnen, Josephine C Dorsman, and GertJan B van Ommen BMC Mol Biol. 2008; 9: 84. Published online 2008 October 9. doi: 10.1186/1471-2199-9-84.PMCID: PMC2588454 New insights into SRY regulation through identification of 5' conserved sequences Diana GF Ross, Josephine Bowles, Peter Koopman, and Sigrid Lehnert BMC Mol Biol. 2008; 9: 85. Published online 2008 October 14. doi: 10.1186/1471-2199-9-85.PMCID: PMC2572636 The orthologue of the "acatalytic" mammalian ART4 in chicken is an arginine-specific mono-ADP-ribosyltransferase Andreas Grahnert, Steffi Richter, Fritzi Siegert, Angela Berndt, and Sunna Hauschildt BMC Mol Biol. 2008; 9: 86. Published online 2008 October 14. doi: 10.1186/1471-2199-9-86.PMCID: PMC2576468 FIZ1 is part of the regulatory protein complex on active photoreceptor-specific gene promoters in vivo Raghuveer S Mali, Guang-Hua Peng, Xiao Zhang, Loan Dang, Shiming Chen, and Kenneth P Mitton BMC Mol Biol. 2008; 9: 87. Published online 2008 October 14. doi: 10.1186/1471-2199-9-87.PMCID: PMC2571102 Computational modeling and in silico analysis of differential regulation of myo-inositol catabolic enzymes in Cryptococcus neoformans Emalee A Mackenzie and Lisa S Klig BMC Mol Biol. 2008; 9: 88. Published online 2008 October 14. doi: 10.1186/1471-2199-9-88.PMCID: PMC2584100 Identifying intrinsic and extrinsic determinants that regulate internal initiation of translation mediated by the FMR1 5' leader Tara Dobson, Erika Kube, Stephanie Timmerman, and Les A Krushel BMC Mol Biol. 2008; 9: 89. Published online 2008 October 15. doi: 10.1186/1471-2199-9-89.PMCID: PMC2576346 Identification of two regulatory binding sites which confer myotube specific expression of the mono-ADP-ribosyltransferase ART1 gene Maik Friedrich, Levin Böhlig, Ralf D Kirschner, Kurt Engeland, and Sunna Hauschildt BMC Mol Biol. 2008; 9: 91. Published online 2008 October 21. doi: 10.1186/1471-2199-9-91.PMCID: PMC2575215 Characterization of the internal IRES element of the zebrafish connexin55.5 reveals functional implication of the polypyrimidine tract binding protein Mahboob Ul-Hussain, Rolf Dermietzel, and Georg Zoidl BMC Mol Biol. 2008; 9: 92. Published online 2008 October 23. doi: 10.1186/1471-2199-9-92.PMCID: PMC2579433 Novel RNA-binding properties of the MTG chromatin regulatory proteins Stefano Rossetti, Leontine van Unen, Nicoletta Sacchi, and Andre T Hoogeveen BMC Mol Biol. 2008; 9: 93. Published online 2008 October 24. doi: 10.1186/1471-2199-9-93.PMCID: PMC2579434 High-fidelity correction of genomic uracil by human mismatch repair activities Erik D Larson, David W Bednarski, and Nancy Maizels BMC Mol Biol. 2008; 9: 94. Published online 2008 October 27. doi: 10.1186/1471-2199-9-94.PMCID: PMC2606688 Complex organisation and structure of the ghrelin antisense strand gene GHRLOS, a candidate non-coding RNA gene Inge Seim, Shea L Carter, Adrian C Herington, and Lisa K Chopin BMC Mol Biol. 2008; 9: 95. Published online 2008 October 28. doi: 10.1186/1471-2199-9-95.PMCID: PMC2621237 Instability of standard PCR reference genes in adipose-derived stem cells during propagation, differentiation and hypoxic exposure Trine Fink, Pia Lund, Linda Pilgaard, Jeppe Grøndahl Rasmussen, Meg Duroux, and Vladimir Zachar BMC Mol Biol. 2008; 9: 98. Published online 2008 October 31. doi: 10.1186/1471-2199-9-98.PMCID: PMC2585587 Promoter Hypermethylation-mediated Inactivation of LRRC4 in Gliomas Zuping Zhang, Dan Li, Minghua Wu, Bo Xiang, Li Wang, Ming Zhou, Pan Chen, Xiaoling Li, Shourong Shen, and Guiyuan Li BMC Mol Biol. 2008; 9: 99. Published online 2008 November 3. doi: 10.1186/1471-2199-9-99.PMCID: PMC2588634 Control of replication initiation by the Sum1/Rfm1/Hst1 histone deacetylase Jan M Weber, Horst Irlbacher, and Ann E Ehrenhofer-Murray BMC Mol Biol. 2008; 9: 100. Published online 2008 November 6. doi: 10.1186/1471-2199-9-100.PMCID: PMC2585588 Characterization of housekeeping genes in zebrafish: male-female differences and effects of tissue type, developmental stage and chemical treatment Amy T McCurley and Gloria V Callard BMC Mol Biol. 2008; 9: 102. Published online 2008 November 12. doi: 10.1186/1471-2199-9-102.PMCID: PMC2588455 Identification of Importin 8 (IPO8) as the most accurate reference gene for the clinicopathological analysis of lung specimens Paul A Nguewa, Jackeline Agorreta, David Blanco, Maria Dolores Lozano, Javier Gomez-Roman, Blas A Sanchez, Iñaki Valles, Maria J Pajares, Ruben Pio, Maria Jose Rodriguez, Luis M Montuenga, and Alfonso Calvo BMC Mol Biol. 2008; 9: 103. Published online 2008 November 17. doi: 10.1186/1471-2199-9-103.PMCID: PMC2612021 The artiodactyl APOBEC3 innate immune repertoire shows evidence for a multi-functional domain organization that existed in the ancestor of placental mammals Rebecca S LaRue, Stefán R Jónsson, Kevin AT Silverstein, Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk, Isidro Hötzel, Valgerdur Andrésdóttir, Timothy PL Smith, and Reuben S Harris BMC Mol Biol. 2008; 9: 104. Published online 2008 November 18. doi: 10.1186/1471-2199-9-104.PMCID: PMC2612020 Identification of phylogenetically conserved sequence motifs in microRNA 5' flanking sites from C. elegans and C. briggsae Liisa Heikkinen, Suvi Asikainen, and Garry Wong BMC Mol Biol. 2008; 9: 105. Published online 2008 November 26. doi: 10.1186/1471-2199-9-105.PMCID: PMC2613404 Two evolutionarily conserved sequence elements for Peg3/Usp29 transcription Jeong Do Kim, Sungryul Yu, Jung Ha Choo, and Joomyeong Kim BMC Mol Biol. 2008; 9: 108. Published online 2008 December 10. doi: 10.1186/1471-2199-9-108.PMCID: PMC2615030 Methodology Articles Preamplification techniques for real-time RT-PCR analyses of endomyocardial biopsies Michel Noutsias, Maria Rohde, Andrea Block, Katrin Klippert, Olga Lettau, Katja Blunert, Michael Hummel, Uwe Kühl, Hans Lehmkuhl, Roland Hetzer, Ursula Rauch, Wolfgang Poller, Matthias Pauschinger, Heinz P Schultheiss, Hans D Volk, and Katja Kotsch BMC Mol Biol. 2008; 9: 3. Published online 2008 January 14. doi: 10.1186/1471-2199-9-3.PMCID: PMC2262094 Use of the lambda Red recombinase system to rapidly generate mutants in Pseudomonas aeruginosa Biliana Lesic and Laurence G Rahme BMC Mol Biol. 2008; 9: 20. Published online 2008 February 4. doi: 10.1186/1471-2199-9-20.PMCID: PMC2287187 miR-Q: a novel quantitative RT-PCR approach for the expression profiling of small RNA molecules such as miRNAs in a complex sample Soroush Sharbati-Tehrani, Barbara Kutz-Lohroff, Ramona Bergbauer, Jutta Scholven, and Ralf Einspanier BMC Mol Biol. 2008; 9: 34. Published online 2008 April 10. doi: 10.1186/1471-2199-9-34.PMCID: PMC2374797 Mutation detection using ENDO1: Application to disease diagnostics in humans and TILLING and Eco-TILLING in plants Karine Triques, Elodie Piednoir, Marion Dalmais, Julien Schmidt, Christine Le Signor, Mark Sharkey, Michel Caboche, Bénédicte Sturbois, and Abdelhafid Bendahmane BMC Mol Biol. 2008; 9: 42. Published online 2008 April 23. doi: 10.1186/1471-2199-9-42.PMCID: PMC2386800 A novel universal real-time PCR system using the attached universal duplex probes for quantitative analysis of nucleic acids Litao Yang, Wanqi Liang, Lingxi Jiang, Wenquan Li, Wei Cao, Zoe A Wilson, and Dabing Zhang BMC Mol Biol. 2008; 9: 54. Published online 2008 June 4. doi: 10.1186/1471-2199-9-54.PMCID: PMC2443376 Selection of housekeeping genes for gene expression studies in the adult rat submandibular gland under normal, inflamed, atrophic and regenerative states Nicholas Silver, Emanuele Cotroneo, Gordon Proctor, Samira Osailan, Katherine L Paterson, and Guy H Carpenter BMC Mol Biol. 2008; 9: 64. Published online 2008 July 17. doi: 10.1186/1471-2199-9-64.PMCID: PMC2492873 Efficient four fragment cloning for the construction of vectors for targeted gene replacement in filamentous fungi Rasmus JN Frandsen, Jens A Andersson, Matilde B Kristensen, and Henriette Giese BMC Mol Biol. 2008; 9: 70. Published online 2008 August 1. doi: 10.1186/1471-2199-9-70.PMCID: PMC2533011 Normalisation genes for expression analyses in the brown alga model Ectocarpus siliculosus Aude Le Bail, Simon M Dittami, Pierre-Olivier de Franco, Sylvie Rousvoal, Mark J Cock, Thierry Tonon, and Bénédicte Charrier BMC Mol Biol. 2008; 9: 75. Published online 2008 August 18. doi: 10.1186/1471-2199-9-75.PMCID: PMC2546422 Identification of suitable endogenous control genes for microRNA gene expression analysis in human breast cancer Pamela A Davoren, Roisin E McNeill, Aoife J Lowery, Michael J Kerin, and Nicola Miller BMC Mol Biol. 2008; 9: 76. Published online 2008 August 21. doi: 10.1186/1471-2199-9-76.PMCID: PMC2533012 Phi29 polymerase based random amplification of viral RNA as an alternative to random RT-PCR Nicolas Berthet, Anita K Reinhardt, India Leclercq, Sven van Ooyen, Christophe Batéjat, Philip Dickinson, Rayna Stamboliyska, Iain G Old, Katherine A Kong, Laurent Dacheux, Hervé Bourhy, Giulia C Kennedy, Christian Korfhage, Stewart T Cole, and Jean-Claude Manuguerra BMC Mol Biol. 2008; 9: 77. Published online 2008 September 4. doi: 10.1186/1471-2199-9-77.PMCID: PMC2535778 Selection of internal reference genes for SYBR green qRT-PCR studies of rhesus monkey (Macaca mulatta) tissues Kung Ahn, Jae-Won Huh, Sang-Je Park, Dae-Soo Kim, Hong-Seok Ha, Yun-Ji Kim, Ja-Rang Lee, Kyu-Tae Chang, and Heui-Soo Kim BMC Mol Biol. 2008; 9: 78. Published online 2008 September 10. doi: 10.1186/1471-2199-9-78.PMCID: PMC2561044 Ectopic expression of a truncated CD40L protein from synthetic post-transcriptionally capped RNA in dendritic cells induces high levels of IL-12 secretion Irina Y Tcherepanova, Melissa D Adams, Xiaorong Feng, Atsushi Hinohara, Joe Horvatinovich, David Calderhead, Don Healey, and Charles A Nicolette BMC Mol Biol. 2008; 9: 90. Published online 2008 October 17. doi: 10.1186/1471-2199-9-90.PMCID: PMC2576345 Critical evaluation of methods used to determine amplification efficiency refutes the exponential character of real-time PCR Robert G Rutledge and Don Stewart BMC Mol Biol. 2008; 9: 96. Published online 2008 October 30. doi: 10.1186/1471-2199-9-96.PMCID: PMC2587475 Isolation of novel coregulatory protein networks associated with DNA-bound estrogen receptor alpha Jennifer R Schultz-Norton, Yvonne S Ziegler, Varsha S Likhite, John R Yates, and Ann M Nardulli BMC Mol Biol. 2008; 9: 97. Published online 2008 October 30. doi: 10.1186/1471-2199-9-97.PMCID: PMC2585101 Analysis of chromatin boundary activity in Drosophila cells Mo Li, Vladimir E Belozerov, and Haini N Cai BMC Mol Biol. 2008; 9: 109. Published online 2008 December 11. doi: 10.1186/1471-2199-9-109.PMCID: PMC2621236 |