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  1. To elucidate the genes involved in the neoplastic transformation of B cells, global gene expression profiles were generated using Affymetrix U74Av2 microarrays, containing 12,488 genes, for four different grou...

    Authors: Eun Sung Park, John D Shaughnessy Jr, Shalu Gupta, Hongyang Wang, Ju-Seog Lee, Hyun Goo Woo, Fenghuang Zhan, James D Owens Jr, Michael Potter, Siegfried Janz and J Frederic Mushinski
    Citation: BMC Genomics 2007 8:302
    Content type: Research article Published on:

  2. In sandflies, the blood meal is responsible for the induction of several physiologic processes that culminate in egg development and maturation. During blood feeding, infected sandflies are also able to transm...

    Authors: Marcelo Ramalho-Ortigão, Ryan C Jochim, Jennifer M Anderson, Phillip G Lawyer, Van-My Pham, Shaden Kamhawi and Jesus G Valenzuela
    Citation: BMC Genomics 2007 8:300
    Content type: Research article Published on:

  3. The recent development of new high-throughput technologies for SNP genotyping has opened the possibility of taking a genome-wide linkage approach to the search for new candidate genes involved in heredity dise...

    Authors: Anna Gonzalez-Neira, Juan Manuel Rosa-Rosa, Ana Osorio, Emilio Gonzalez, Melissa Southey, Olga Sinilnikova, Henry Lynch, Rogier A Oldenburg, Christi J van Asperen, Nicoline Hoogerbrugge, Guillermo Pita, Peter Devilee, David Goldgar and Javier Benitez
    Citation: BMC Genomics 2007 8:299
    Content type: Research article Published on:

  4. Ghrelin is a multifunctional peptide hormone expressed in a range of normal tissues and pathologies. It has been reported that the human ghrelin gene consists of five exons which span 5 kb of genomic DNA on ch...

    Authors: Inge Seim, Chris Collet, Adrian C Herington and Lisa K Chopin
    Citation: BMC Genomics 2007 8:298
    Content type: Research article Published on:

  5. Lung cancer is the most common cause of cancer-related deaths. Tobacco smoke exposure is the strongest aetiological factor associated with lung cancer. In this study, using serial analysis of gene expression (...

    Authors: Raj Chari, Kim M Lonergan, Raymond T Ng, Calum MacAulay, Wan L Lam and Stephen Lam
    Citation: BMC Genomics 2007 8:297
    Content type: Research article Published on:

  6. Sequence and transcriptional variability within and between individuals are typically studied independently. The joint analysis of sequence and gene expression variation (genetical genomics) provides insight i...

    Authors: Andrew W Bergen, Andrea Baccarelli, Timothy K McDaniel, Kenneth Kuhn, Ruth Pfeiffer, Jerry Kakol, Patrick Bender, Kevin Jacobs, Bernice Packer, Stephen J Chanock and Meredith Yeager
    Citation: BMC Genomics 2007 8:296
    Content type: Research article Published on:

  7. Recent studies revealed that many mammalian protein-coding genes also transcribe their complementary strands. This phenomenon raises questions regarding the validity of data obtained from double-stranded cDNA ...

    Authors: Johan Vallon-Christersson, Johan Staaf, Anders Kvist, Patrik Medstrand, Åke Borg and Carlos Rovira
    Citation: BMC Genomics 2007 8:295
    Content type: Research article Published on:

  8. The actin cytoskeleton plays a crucial role in supporting and regulating numerous cellular processes. Mutations or alterations in the expression levels affecting the actin cytoskeleton system or related regula...

    Authors: Jean Muller, André Mehlen, Guillaume Vetter, Mikalai Yatskou, Arnaud Muller, Frédéric Chalmel, Olivier Poch, Evelyne Friederich and Laurent Vallar
    Citation: BMC Genomics 2007 8:294
    Content type: Methodology article Published on:

  9. Studies on heteroplasmy occurring in the mitochondrial DNA (mtDNA) control region (CR) in leukocytes of centenarians and younger subjects have shown that the C150T somatic transition is over-represented in cen...

    Authors: Giuseppina Rose, Giuseppe Passarino, Vittorio Scornaienchi, Giuseppe Romeo, Serena Dato, Dina Bellizzi, Vincenzo Mari, Emidio Feraco, Raffaele Maletta, Amalia Bruni, Claudio Franceschi and Giovanna De Benedictis
    Citation: BMC Genomics 2007 8:293
    Content type: Research article Published on:

  10. Short-term OE (oleoyl-estrone) treatment causes significant decreases in rat weight mainly due to adipose tissue loss. The aim of this work was to determine if OE treatment affects the expression of genes that...

    Authors: Anna Salas, Véronique Noé, Carlos J Ciudad, M Mar Romero, Xavier Remesar and Montserrat Esteve
    Citation: BMC Genomics 2007 8:292
    Content type: Research article Published on:

  11. Retrotransposons have been shown to contribute to evolution of both structure and regulation of protein coding genes. It has been postulated that the primary mechanism by which retrotransposons contribute to s...

    Authors: Jittima Piriyapongsa, Nalini Polavarapu, Mark Borodovsky and John McDonald
    Citation: BMC Genomics 2007 8:291
    Content type: Research article Published on:

  12. Salmonella paratyphi C, like S. typhi, is adapted to humans and causes typhoid fever. Previously we reported different genome structures between two strains of S. paratyphi C, which suggests that S. paratyphi C m...

    Authors: Wei-Qiao Liu, Gui-Rong Liu, Jun-Qian Li, Guo-Min Xu, Danni Qi, Xiao-Yan He, Juan Deng, Feng-Min Zhang, Randal N Johnston and Shu-Lin Liu
    Citation: BMC Genomics 2007 8:290
    Content type: Research article Published on:

  18. Microarrays are a popular tool used in experiments to measure gene expression levels. Improving the reproducibility of microarray results produced by different chips from various manufacturers is important to ...

    Authors: Joseph C Lee, David Stiles, Jun Lu and Margaret C Cam
    Citation: BMC Genomics 2007 8:284
    Content type: Research article Published on:

  19. Various methods have been developed to explore inter-genomic relationships among plant species. Here, we present a sequence similarity analysis based upon comparison of transcript-assembly and methylation-filt...

    Authors: Ian Armstead, Lin Huang, Julie King, Helen Ougham, Howard Thomas and Ian King
    Citation: BMC Genomics 2007 8:283
    Content type: Research article Published on:

  20. Genetic variants in immune regulator genes have been associated with numerous diseases, including allergies and cancer. Increasing evidence suggests a substantially elevated disease risk in individuals who car...

    Authors: Janne Pullat, Robert Fleischer, Nikolaus Becker, Markus Beier, Andres Metspalu and Jörg D Hoheisel
    Citation: BMC Genomics 2007 8:282
    Content type: Methodology article Published on:

  21. A large quantity of nitrogen (N) fertilizer is used for crop production to achieve high yields at a significant economic and environmental cost. Efforts have been directed to understanding the molecular basis ...

    Authors: Yong-Mei Bi, Rong-Lin Wang, Tong Zhu and Steven J Rothstein
    Citation: BMC Genomics 2007 8:281
    Content type: Research article Published on:

  22. Fluctuations in external salinity force eukaryotic cells to respond by changes in the gene expression of proteins acting in protective biochemical processes, thus counteracting the changing osmotic pressure. T...

    Authors: Tomaž Vaupotič and Ana Plemenitaš
    Citation: BMC Genomics 2007 8:280
    Content type: Research article Published on:

  23. Reverse transcription PCR (RT-PCR) is widely recognized to be the gold standard method for quantifying gene expression. Studies using RT-PCR technology as a discovery tool have historically been limited to rel...

    Authors: Kim M Clark-Langone, Jenny Y Wu, Chithra Sangli, Angela Chen, James L Snable, Anhthu Nguyen, James R Hackett, Joffre Baker, Greg Yothers, Chungyeul Kim and Maureen T Cronin
    Citation: BMC Genomics 2007 8:279
    Content type: Methodology article Published on:

  24. Rice feeds much of the world, and possesses the simplest genome analyzed to date within the grass family, making it an economically relevant model system for other cereal crops. Although the rice genome is seq...

    Authors: Shiguo Zhou, Michael C Bechner, Michael Place, Chris P Churas, Louise Pape, Sally A Leong, Rod Runnheim, Dan K Forrest, Steve Goldstein, Miron Livny and David C Schwartz
    Citation: BMC Genomics 2007 8:278
    Content type: Research article Published on:

  25. Laser microdissection microscopy has become a rising tool to assess gene expression profiles of pure cell populations. Given the low yield of RNA, a second round of amplification is usually mandatory to yield ...

    Authors: Mirjam C Boelens, Gerard J te Meerman, Johan H Gibcus, Tjasso Blokzijl, H Marike Boezen, Wim Timens, Dirkje S Postma, Harry JM Groen and Anke van den Berg
    Citation: BMC Genomics 2007 8:277
    Content type: Research article Published on:

  26. Diagnostics and disease-management strategies require technologies to enable the simultaneous detection and quantification of a wide range of pathogenic microorganisms. Most multiplex, quantitative detection m...

    Authors: Ronald van Doorn, Marianna Szemes, Peter Bonants, George A Kowalchuk, Joana F Salles, Elen Ortenberg and Cor D Schoen
    Citation: BMC Genomics 2007 8:276
    Content type: Methodology article Published on:

  27. Allele-specific (AS) Polymerase Chain Reaction is a convenient and inexpensive method for genotyping Single Nucleotide Polymorphisms (SNPs) and mutations. It is applied in many recent studies including populat...

    Authors: Pongsakorn Wangkumhang, Kridsadakorn Chaichoompu, Chumpol Ngamphiw, Uttapong Ruangrit, Juntima Chanprasert, Anunchai Assawamakin and Sissades Tongsima
    Citation: BMC Genomics 2007 8:275
    Content type: Software Published on:

  29. Photodynamic therapy (PDT) involves systemic or topical administration of a lesion-localizing photosensitizer or its precursor, followed by irradiation of visible light to cause singlet oxygen-induced damage t...

    Authors: Lina Cekaite, Qian Peng, Andrew Reiner, Susan Shahzidi, Siri Tveito, Ingegerd E Furre and Eivind Hovig
    Citation: BMC Genomics 2007 8:273
    Content type: Research article Published on:

  30. The basidiomycete fungus Microbotryum violaceum is responsible for the anther-smut disease in many plants of the Caryophyllaceae family and is a model in genetics and evolutionary biology. Infection is initiated ...

    Authors: Roxana Yockteng, Sylvain Marthey, Hélène Chiapello, Annie Gendrault, Michael E Hood, François Rodolphe, Benjamin Devier, Patrick Wincker, Carole Dossat and Tatiana Giraud
    Citation: BMC Genomics 2007 8:272
    Content type: Research article Published on:

  31. The majority of the genes involved in the inflammatory response are highly conserved in mammals. These genes are not significantly expressed under normal conditions and are mainly regulated at the transcriptio...

    Authors: Daniel Rico, Juan M Vaquerizas, Hernán Dopazo and Lisardo Boscá
    Citation: BMC Genomics 2007 8:271
    Content type: Research article Published on:

  32. Macaca mulatta is one of the most utilized non-human primate species in biomedical research offering unique behavioral, neuroanatomical, and neurobiochemcial similarities to humans. This makes it a unique organis...

    Authors: Nilesh S Tannu and Scott E Hemby
    Citation: BMC Genomics 2007 8:270
    Content type: Research article Published on:

  33. The guppy, Poecilia reticulata, is a well-known model organism for studying inheritance and variation of male ornamental traits as well as adaptation to different river habitats. However, genomic resources for st...

    Authors: Christine Dreyer, Margarete Hoffmann, Christa Lanz, Eva-Maria Willing, Markus Riester, Norman Warthmann, Andrea Sprecher, Namita Tripathi, Stefan R Henz and Detlef Weigel
    Citation: BMC Genomics 2007 8:269
    Content type: Research article Published on:

  34. The Down syndrome phenotype has been attributed to overexpression of chromosome 21 (Hsa21) genes. However, the expression profile of Hsa21 genes in trisomic human subjects as well as their effects on genes loc...

    Authors: Anna Conti, Floriana Fabbrini, Paola D'Agostino, Rosa Negri, Dario Greco, Rita Genesio, Maria D'Armiento, Carlo Olla, Dario Paladini, Mariastella Zannini and Lucio Nitsch
    Citation: BMC Genomics 2007 8:268
    Content type: Research article Published on:

  35. Fasting has dramatic effects on small intestinal transport function. However, little is known on expression of intestinal transport and phase I/II metabolism genes during fasting and the role the fatty acid-ac...

    Authors: Heleen M van den Bosch, Meike Bünger, Philip J de Groot, Jolanda van der Meijde, Guido JEJ Hooiveld and Michael Müller
    Citation: BMC Genomics 2007 8:267
    Content type: Research article Published on:

  36. Although genes play a key role in many complex diseases, the specific genes involved in most complex diseases remain largely unidentified. Their discovery will hinge on the identification of key sequence varia...

    Authors: Jacob L McCauley, Shannon J Kenealy, Elliott H Margulies, Nathalie Schnetz-Boutaud, Simon G Gregory, Stephen L Hauser, Jorge R Oksenberg, Margaret A Pericak-Vance, Jonathan L Haines and Douglas P Mortlock
    Citation: BMC Genomics 2007 8:266
    Content type: Methodology article Published on:

  38. Human myelopoiesis is an exciting biological model for cellular differentiation since it represents a plastic process where multipotent stem cells gradually limit their differentiation potential, generating di...

    Authors: Francesco Ferrari, Stefania Bortoluzzi, Alessandro Coppe, Dario Basso, Silvio Bicciato, Roberta Zini, Claudia Gemelli, Gian Antonio Danieli and Sergio Ferrari
    Citation: BMC Genomics 2007 8:264
    Content type: Research article Published on:

  39. Target-primed (non-LTR) retrotransposons, such as the human L1 element, are mobile genetic elements found in many eukaryotic genomes. They are often present in large numbers and their retrotransposition can ca...

    Authors: Timothy JD Goodwin, Jason N Busby and Russell TM Poulter
    Citation: BMC Genomics 2007 8:263
    Content type: Research article Published on:

  40. Reference genome sequences within the major taxa can be used to assist the development of genomic tools for related organisms. A major constraint in the use of these sequenced and annotated genomes is divergen...

    Authors: Jeffry L Shultz, Sikander Ali, Linda Ballard and David A Lightfoot
    Citation: BMC Genomics 2007 8:262
    Content type: Research article Published on:

  41. In Streptomyces coelicolor, bldA encodes the only tRNA for a rare leucine codon, UUA. This tRNA is unnecessary for growth, but is required for some aspects of secondary metabolism and morphological development. W...

    Authors: Andy Hesketh, Giselda Bucca, Emma Laing, Fiona Flett, Graham Hotchkiss, Colin P Smith and Keith F Chater
    Citation: BMC Genomics 2007 8:261
    Content type: Research article Published on:

  42. In plants, complex regulatory mechanisms are at the core of physiological and developmental processes. The phytohormone abscisic acid (ABA) is involved in the regulation of various such processes, including st...

    Authors: Judith L Gómez-Porras, Diego Mauricio Riaño-Pachón, Ingo Dreyer, Jorge E Mayer and Bernd Mueller-Roeber
    Citation: BMC Genomics 2007 8:260
    Content type: Research article Published on:

  44. The epidermal growth factor receptor (EGFR/HER1) and its downstream signaling events are important for regulating cell growth and behavior in many epithelial tumors types. In breast cancer, the role of EGFR is...

    Authors: Katherine A Hoadley, Victor J Weigman, Cheng Fan, Lynda R Sawyer, Xiaping He, Melissa A Troester, Carolyn I Sartor, Thais Rieger-House, Philip S Bernard, Lisa A Carey and Charles M Perou
    Citation: BMC Genomics 2007 8:258
    Content type: Research article Published on:

  46. The primary regulator of spermatogenesis, a highly ordered and tightly regulated developmental process, is an intrinsic genetic program involving male germ cell-specific genes.

    Authors: Eunyoung Choi, Jiae Lee, Jungsu Oh, Inju Park, Cecil Han, Chongil Yi, Do Han Kim, Byung-Nam Cho, Edward M Eddy and Chunghee Cho
    Citation: BMC Genomics 2007 8:256
    Content type: Research article Published on:

  47. The completion of the Plasmodium falciparum genome represents a milestone in malaria research. The genome sequence allows for the development of genome-wide approaches such as microarray and proteomics that will ...

    Authors: Fangli Lu, Hongying Jiang, Jinhui Ding, Jianbing Mu, Jesus G Valenzuela, José MC Ribeiro and Xin-zhuan Su
    Citation: BMC Genomics 2007 8:255
    Content type: Research article Published on:

  48. Radiation hybrid (RH) maps are considered to be a tool of choice for fine mapping closely linked loci, considering that the resolution of linkage maps is determined by the number of informative meiosis and rec...

    Authors: Elisa Marques, Simon de Givry, Paul Stothard, Brenda Murdoch, Zhiquan Wang, James Womack and Stephen S Moore
    Citation: BMC Genomics 2007 8:254
    Content type: Research article Published on:

  50. Trichophyton rubrum is the most common dermatophyte species and the most frequent cause of fungal skin infections in humans worldwide. It's a major concern because feet and nail infections caused by this organism...

    Authors: Jian Yang, Lihong Chen, Lingling Wang, Wenliang Zhang, Tao Liu and Qi Jin
    Citation: BMC Genomics 2007 8:250
    Content type: Database Published on:

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