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  1. Teleost fish have seven paralogous clusters of Hox genes stemming from two complete genome duplications early in vertebrate evolution, and an additional genome duplication during the evolution of ray-finned fi...

    Authors: Simone Hoegg, Jeffrey L Boore, Jennifer V Kuehl and Axel Meyer
    Citation: BMC Genomics 2007 8:317
    Content type: Research article Published on:

  2. Non-coding RNAs (ncRNAs) are involved in a wide spectrum of regulatory functions. Within recent years, there have been increasing reports of observed polyadenylated ncRNAs and mRNA like ncRNAs in eukaryotes. T...

    Authors: Stefan E Seemann, Michael J Gilchrist, Ivo L Hofacker, Peter F Stadler and Jan Gorodkin
    Citation: BMC Genomics 2007 8:316
    Content type: Research article Published on:

  3. Giant panda is rare and endangered species endemic to China. The low rates of reproductive success and infectious disease resistance have severely hampered the development of captive and wild populations of th...

    Authors: Chang-Jun Zeng, Hui-Juan Pan, Shao-Bin Gong, Jian-Qiu Yu, Qiu-Hong Wan and Sheng-Guo Fang
    Citation: BMC Genomics 2007 8:315
    Content type: Research article Published on:

  4. We performed large-scale bacterial artificial chromosome (BAC) end-sequencing of two BAC libraries (an Eco RI- and a Bam HI-digested library) and conducted an in silico analysis to characterize the obtained seque...

    Authors: Yoshitaka Suetsugu, Hiroshi Minami, Michihiko Shimomura, Shun-ichi Sasanuma, Junko Narukawa, Kazuei Mita and Kimiko Yamamoto
    Citation: BMC Genomics 2007 8:314
    Content type: Research article Published on:

  5. The mammalian OAS/RNASEL pathway plays an important role in antiviral host defense. A premature stop-codon within the murine Oas1b gene results in the increased susceptibility of mice to a number of flaviviruses,...

    Authors: Jonathan J Rios, Andrey A Perelygin, Maureen T Long, Teri L Lear, Andrey A Zharkikh, Margo A Brinton and David L Adelson
    Citation: BMC Genomics 2007 8:313
    Content type: Research article Published on:

  6. The evolutionary lineage leading to the teleost fish underwent a whole genome duplication termed FSGD or 3R in addition to two prior genome duplications that took place earlier during vertebrate evolution (ter...

    Authors: Nicol Siegel, Simone Hoegg, Walter Salzburger, Ingo Braasch and Axel Meyer
    Citation: BMC Genomics 2007 8:312
    Content type: Research article Published on:

  7. Lungworms of the genus Dictyocaulus (family Dictyocaulidae) are parasitic nematodes of major economic importance. They cause pathological effects and clinical disease in various ruminant hosts, particularly in yo...

    Authors: Shoba Ranganathan, Shivashankar H Nagaraj, Min Hu, Christina Strube, Thomas Schnieder and Robin B Gasser
    Citation: BMC Genomics 2007 8:311
    Content type: Research article Published on:

  8. High resolution radiation hybrid (RH) maps can facilitate genome sequence assembly by correctly ordering genes and genetic markers along chromosomes. The objective of the present study was to generate high res...

    Authors: Aparna Prasad, Thomas Schiex, Stephanie McKay, Brenda Murdoch, Zhiquan Wang, James E Womack, Paul Stothard and Stephen S Moore
    Citation: BMC Genomics 2007 8:310
    Content type: Research article Published on:

  9. Microsporidia, parasitic fungi-related eukaryotes infecting many cell types in a wide range of animals (including humans), represent a serious health threat in immunocompromised patients. The 2.9 Mb genome of ...

    Authors: Diego Miranda-Saavedra, Michael JR Stark, Jeremy C Packer, Christian P Vivares, Christian Doerig and Geoffrey J Barton
    Citation: BMC Genomics 2007 8:309
    Content type: Research article Published on:

  10. The Burkholderia cepacia complex (Bcc) groups bacterial species with beneficial properties that can improve crop yields or remediate polluted sites but can also lead to dramatic human clinical outcomes among cyst...

    Authors: Aymeric Menard, Paulina Estrada de los Santos, Arnault Graindorge and Benoit Cournoyer
    Citation: BMC Genomics 2007 8:308
    Content type: Research article Published on:

  11. Synthesis of the Staphylococcus aureus peptidoglycan pentaglycine interpeptide bridge is catalyzed by the nonribosomal peptidyl transferases FemX, FemA and FemB. Inactivation of the femAB operon reduces the inter...

    Authors: Judith Hübscher, Andrea Jansen, Oliver Kotte, Juliane Schäfer, Paul A Majcherczyk, Llinos G Harris, Gabriele Bierbaum, Matthias Heinemann and Brigitte Berger-Bächi
    Citation: BMC Genomics 2007 8:307
    Content type: Research article Published on:

  12. Melon (Cucumis melo L.) is one of the most important fleshy fruits for fresh consumption. Despite this, few genomic resources exist for this species. To facilitate the discovery of genes involved in essential tra...

    Authors: Daniel Gonzalez-Ibeas, José Blanca, Cristina Roig, Mireia González-To, Belén Picó, Verónica Truniger, Pedro Gómez, Wim Deleu, Ana Caño-Delgado, Pere Arús, Fernando Nuez, Jordi Garcia-Mas, Pere Puigdomènech and Miguel A Aranda
    Citation: BMC Genomics 2007 8:306
    Content type: Research article Published on:

  13. Thymoma is a heterogeneous group of tumors in biology and clinical behavior. Even though thymoma is divided into five subgroups following the World Health Organization classification, the nature of the disease...

    Authors: Gui Youn Lee, Woo Ick Yang, Hei Cheul Jeung, Sang Chul Kim, Min Young Seo, Chan Hee Park, Hyun Cheol Chung and Sun Young Rha
    Citation: BMC Genomics 2007 8:305
    Content type: Research article Published on:

  14. With the advent of microarray technology, it has become feasible to identify virtually all genes in an organism that are induced by developmental or environmental changes. However, relying solely on gene expre...

    Authors: Aakash Chawade, Marcus Bräutigam, Angelica Lindlöf, Olof Olsson and Björn Olsson
    Citation: BMC Genomics 2007 8:304
    Content type: Research article Published on:

  15. Cultivated chickpea (Cicer arietinum) has a narrow genetic base making it difficult for breeders to produce new elite cultivars with durable resistance to major biotic and abiotic stresses. As an alternative to g...

    Authors: Nitin L Mantri, Rebecca Ford, Tristan E Coram and Edwin CK Pang
    Citation: BMC Genomics 2007 8:303
    Content type: Research article Published on:

  16. 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:

  17. The presence of the branched Entner-Doudoroff (ED) pathway in two hyperthermophilic Crenarchaea, the anaerobe Thermoproteus tenax and the aerobe Sulfolobus solfataricus, was suggested. However, so far no enzymati...

    Authors: Daniel Kehrer, Hatim Ahmed, Henner Brinkmann and Bettina Siebers
    Citation: BMC Genomics 2007 8:301
    Content type: Research article Published on:

  18. 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:

  19. 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:

  20. 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:

  21. 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:

  22. 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:

  23. 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:

  24. 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:

  25. 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:

  26. 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:

  27. 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:

  28. 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:

  34. 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:

  35. 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:

  36. 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:

  37. 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:

  38. 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:

  39. 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:

  40. 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:

  41. 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:

  42. 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:

  43. 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:

  45. 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:

  46. 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:

  47. 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:

  48. 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:

  49. 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:

  50. 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:

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BMC Genomics

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