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  1. Species of the family Vibrionaceae are ubiquitous in marine environments. Several of these species are important pathogens of humans and marine species. Evidence indicates that genetic exchange plays an important...

    Authors: Timothy G Lilburn, Jianying Gu, Hong Cai and Yufeng Wang
    Citation: BMC Genomics 2010 11:369
    Content type: Research article Published on:

  2. elicobacter pylori infection is associated with several gastro-duodenal inflammatory diseases of various levels of severity. To determine whether certain combinations of genetic markers can be used to predict the...

    Authors: Jean-Michel Thiberge, Caroline Boursaux-Eude, Philippe Lehours, Marie-Agnès Dillies, Sophie Creno, Jean-Yves Coppée, Zoé Rouy, Aurélie Lajus, Laurence Ma, Christophe Burucoa, Anne Ruskoné-Foumestraux, Anne Courillon-Mallet, Hilde De Reuse, Ivo Gomperts Boneca, Dominique Lamarque, Francis Mégraud…
    Citation: BMC Genomics 2010 11:368
    Content type: Research article Published on:

  3. The ubiquitin-conjugating enzyme HR6B is required for spermatogenesis in mouse. Loss of HR6B results in aberrant histone modification patterns on the trancriptionally silenced X and Y chromosomes (XY body) and...

    Authors: Eskeatnaf Mulugeta Achame, Evelyne Wassenaar, Jos W Hoogerbrugge, Esther Sleddens-Linkels, Marja Ooms, Zu-Wen Sun, Wilfred FJ van IJcken, J Anton Grootegoed and Willy M Baarends
    Citation: BMC Genomics 2010 11:367
    Content type: Research article Published on:

  4. Dinophysis is exceptional among dinoflagellates, possessing plastids derived from cryptophyte algae. Although Dinophysis can be maintained in pure culture for several months, the genus is mixotrophic and needs to...

    Authors: Jennifer H Wisecaver and Jeremiah D Hackett
    Citation: BMC Genomics 2010 11:366
    Content type: Research article Published on:

  5. Spinal cord injury leads to neurological dysfunctions affecting the motor, sensory as well as the autonomic systems. Increased excitability of motor neurons has been implicated in injury-induced spasticity, wh...

    Authors: Jesper Ryge, Ole Winther, Jacob Wienecke, Albin Sandelin, Ann-Charlotte Westerdahl, Hans Hultborn and Ole Kiehn
    Citation: BMC Genomics 2010 11:365
    Content type: Research article Published on:

  6. Cell functions depend on molecules organized in the cellular society. Two basic components are mRNA molecules and proteins. The interactions within and between those two components are crucial for carrying out...

    Authors: Haiyun Wang, Qi Wang, Utz J Pape, Bairong Shen, Jianhua Huang, Bin Wu and Xia Li
    Citation: BMC Genomics 2010 11:364
    Content type: Research article Published on:

  7. Ticks secrete a cement cone composed of many salivary proteins, some of which are rich in the amino acid glycine in order to attach to their hosts' skin. Glycine-rich proteins (GRPs) are a large family of hete...

    Authors: Sandra R Maruyama, Elen Anatriello, Jennifer M Anderson, José M Ribeiro, Lucinda G Brandão, Jesus G Valenzuela, Beatriz R Ferreira, Gustavo R Garcia, Matias PJ Szabó, Sonal Patel, Richard Bishop and Isabel KF de Miranda-Santos
    Citation: BMC Genomics 2010 11:363
    Content type: Research article Published on:

  8. The Antarctic clam, Laternula elliptica, is an infaunal stenothermal bivalve mollusc with a circumpolar distribution. It plays a significant role in bentho-pelagic coupling and hence has been proposed as a sentin...

    Authors: Melody S Clark, Michael AS Thorne, Florbela A Vieira, João CR Cardoso, Deborah M Power and Lloyd S Peck
    Citation: BMC Genomics 2010 11:362
    Content type: Research article Published on:

  9. Differences in gene expression may be caused by nearby DNA polymorphisms (cis regulation) or by interactions of gene control regions with polymorphic transcription factors (trans regulation). Trans acting loci ar...

    Authors: Harry A Noyes, Morris Agaba, Susan Anderson, Alan L Archibald, Andy Brass, John Gibson, Laurence Hall, Helen Hulme, Sung Jong Oh and Stephen Kemp
    Citation: BMC Genomics 2010 11:361
    Content type: Research article Published on:

  10. Increases during aging in extracellular levels of glutamate (Glu), the major excitatory neurotransmitter in the brain, may be linked to chronic neurodegenerative diseases. Little is known about the molecular r...

    Authors: Xinkun Wang, Xiaodong Bao, Ranu Pal, Abdulbaki Agbas and Elias K Michaelis
    Citation: BMC Genomics 2010 11:360
    Content type: Research article Published on:

  11. Glucocorticoids (GCs) control expression of a large number of genes via binding to the GC receptor (GR). Transcription may be regulated either by binding of the GR dimer to DNA regulatory elements or by protei...

    Authors: Raoul Frijters, Wilco Fleuren, Erik JM Toonen, Jan P Tuckermann, Holger M Reichardt, Hans van der Maaden, Andrea van Elsas, Marie-Jose van Lierop, Wim Dokter, Jacob de Vlieg and Wynand Alkema
    Citation: BMC Genomics 2010 11:359
    Content type: Research article Published on:

  12. Aspergillus fumigatus (A. fumigatus) is a ubiquitous fungus which reproduces asexually by releasing abundant airborne conidia (spores), which are easily respirable. In allergic and immunocompromised individuals A...

    Authors: Pol Gomez, Tillie L Hackett, Margo M Moore, Darryl A Knight and Scott J Tebbutt
    Citation: BMC Genomics 2010 11:358
    Content type: Research article Published on:

  13. The human genome displays extensive copy-number variation (CNV). Recent discoveries have shown that large segments of DNA, ranging in size from hundreds to thousands of nucleotides, are either deleted or dupli...

    Authors: Krishna R Kalari, Scott J Hebbring, High Seng Chai, Liang Li, Jean-Pierre A Kocher, Liewei Wang and Richard M Weinshilboum
    Citation: BMC Genomics 2010 11:357
    Content type: Research article Published on:

  15. Different approaches have been developed to dissect the interplay between transcription factors (TFs) and their cis-acting sequences on DNA in order to identify TF target genes. Here we used a combination of c...

    Authors: Francesca Orso, Davide Corà, Benedetta Ubezio, Paolo Provero, Michele Caselle and Daniela Taverna
    Citation: BMC Genomics 2010 11:355
    Content type: Research article Published on:

  16. The European sea bass (Dicentrarchus labrax) is a marine fish of great importance for fisheries and aquaculture. Functional genomics offers the possibility to discover the molecular mechanisms underlying producti...

    Authors: Serena Ferraresso, Massimo Milan, Caterina Pellizzari, Nicola Vitulo, Richard Reinhardt, Adelino VM Canario, Tomaso Patarnello and Luca Bargelloni
    Citation: BMC Genomics 2010 11:354
    Content type: Research article Published on:

  18. Microarrays strategies, which allow for the characterization of thousands of alternative splice forms in a single test, can be applied to identify differential alternative splicing events. In this study, a nov...

    Authors: Ruben Pio, David Blanco, Maria Jose Pajares, Elena Aibar, Olga Durany, Teresa Ezponda, Jackeline Agorreta, Javier Gomez-Roman, Miguel Angel Anton, Angel Rubio, Maria D Lozano, Jose M López-Picazo, Francesc Subirada, Tamara Maes and Luis M Montuenga
    Citation: BMC Genomics 2010 11:352
    Content type: Methodology article Published on:

  19. Chromosomal segmental copy number variation (CNV) has been recently recognized as a very important source of genetic variability. Some CNV loci involve genes or conserved regulatory elements. Compelling eviden...

    Authors: Xiaofei Wang, Samuel Nahashon, Tromondae K Feaster, Ann Bohannon-Stewart and Nathaniel Adefope
    Citation: BMC Genomics 2010 11:351
    Content type: Research article Published on:

  20. The identification of non-coding transcripts in human, mouse, and Escherichia coli has revealed their widespread occurrence and functional importance in both eukaryotic and prokaryotic life. In prokaryotes, studi...

    Authors: Ranjit Kumar, Pratik Shah, Edwin Swiatlo, Shane C Burgess, Mark L Lawrence and Bindu Nanduri
    Citation: BMC Genomics 2010 11:350
    Content type: Research article Published on:

  21. Normalization of microarrays is a standard practice to account for and minimize effects which are not due to the controlled factors in an experiment. There is an overwhelming number of different methods that c...

    Authors: Ramona Schmid, Patrick Baum, Carina Ittrich, Katrin Fundel-Clemens, Wolfgang Huber, Benedikt Brors, Roland Eils, Andreas Weith, Detlev Mennerich and Karsten Quast
    Citation: BMC Genomics 2010 11:349
    Content type: Research article Published on:

  22. The importance of in silico predictions for understanding cellular processes is now widely accepted, and a variety of algorithms useful for studying different biological features have been designed. In particular...

    Authors: Christian Hödar, Rodrigo Assar, Marcela Colombres, Andrés Aravena, Leonardo Pavez, Mauricio González, Servet Martínez, Nibaldo C Inestrosa and Alejandro Maass
    Citation: BMC Genomics 2010 11:348
    Content type: Research article Published on:

  24. Drosophila females commit tremendous resources to egg production and males produce some of the longest sperm in the animal kingdom. We know little about the coordinated regulation of gene expression patterns in d...

    Authors: Michael J Parisi, Vaijayanti Gupta, David Sturgill, James T Warren, Jean-Marc Jallon, John H Malone, Yu Zhang, Lawrence I Gilbert and Brian Oliver
    Citation: BMC Genomics 2010 11:346
    Content type: Research article Published on:

  25. Duchenne muscular dystrophy (DMD) is a fatal muscle wasting disorder caused by mutations in the dystrophin gene. DMD has a complex and as yet incompletely defined molecular pathophysiology hindering developmen...

    Authors: Mohammad M Ghahramani Seno, Capucine Trollet, Takis Athanasopoulos, Ian R Graham, Pingzhao Hu and George Dickson
    Citation: BMC Genomics 2010 11:345
    Content type: Research article Published on:

  26. Recent developments in high-throughput methods of analyzing transcriptomic profiles are promising for many areas of biology, including ecophysiology. However, although commercial microarrays are available for ...

    Authors: Cyril Degletagne, Céline Keime, Benjamin Rey, Marc de Dinechin, Fabien Forcheron, Paul Chuchana, Pierre Jouventin, Christian Gautier and Claude Duchamp
    Citation: BMC Genomics 2010 11:344
    Content type: Methodology article Published on:

  27. Changes in cellular phenotype result from underlying changes in mRNA transcription and translation. Endothelin-1 stimulates cardiomyocyte hypertrophy with associated changes in mRNA/protein expression and an i...

    Authors: Thomais Markou, Andrew K Marshall, Timothy E Cullingford, El L Tham, Peter H Sugden and Angela Clerk
    Citation: BMC Genomics 2010 11:343
    Content type: Research article Published on:

  28. In this study, we used a systematic bioinformatics analysis approach to elucidate genes that exhibit an endothelial cell (EC) restricted expression pattern, and began to define their regulation, tissue distrib...

    Authors: Manoj Bhasin, Lei Yuan, Derin B Keskin, Hasan H Otu, Towia A Libermann and Peter Oettgen
    Citation: BMC Genomics 2010 11:342
    Content type: Research article Published on:

  30. There is increasing evidence that gene location and surrounding genes influence the functionality of genes in the eukaryotic genome. Knowing the Gene Ontology Slim terms associated with a gene gives us insight...

    Authors: Heather A Amthauer and Costas Tsatsoulis
    Citation: BMC Genomics 2010 11:340
    Content type: Research article Published on:

  31. Cucumis melo (melon) belongs to the Cucurbitaceae family, whose economic importance among horticulture crops is second only to Solanaceae. Melon has high intra-specific genetic variation, morphologic diversity an...

    Authors: Víctor M González, Jordi Garcia-Mas, Pere Arús and Pere Puigdomènech
    Citation: BMC Genomics 2010 11:339
    Content type: Research article Published on:

  32. Pollen development from the microspore involves a series of coordinated cellular events, and the resulting mature pollen has a specialized function to quickly germinate, produce a polar-growth pollen tube deri...

    Authors: Li Q Wei, Wen Y Xu, Zhu Y Deng, Zhen Su, Yongbiao Xue and Tai Wang
    Citation: BMC Genomics 2010 11:338
    Content type: Research article Published on:

  33. Osteopetrosis is a skeletal disorder of humans and animals characterized by the formation of overly dense bones, resulting from a deficiency in the number and/or function of bone-resorbing osteoclast cells. In...

    Authors: Stacey N Meyers, Tara G McDaneld, Shannon L Swist, Brandy M Marron, David J Steffen, Donal O'Toole, Jeffrey R O'Connell, Jonathan E Beever, Tad S Sonstegard and Timothy PL Smith
    Citation: BMC Genomics 2010 11:337
    Content type: Research article Published on:

  34. Two decades after the introduction of oil-based vaccines in the control of bacterial and viral diseases in farmed salmonids, the mechanisms of induced side effects manifested as intra-abdominal granulomas rema...

    Authors: Stephen Mutoloki, Glenn A Cooper, Inderjit S Marjara, Ben F Koop and Øystein Evensen
    Citation: BMC Genomics 2010 11:336
    Content type: Research article Published on:

  35. The Mongolian gerbils are a good model to mimic the Helicobacter pylori-associated pathogenesis of the human stomach. In the current study the gerbil-adapted strain B8 was completely sequenced, annotated and comp...

    Authors: Max Farnbacher, Thomas Jahns, Dirk Willrodt, Rolf Daniel, Rainer Haas, Alexander Goesmann, Stefan Kurtz and Gabriele Rieder
    Citation: BMC Genomics 2010 11:335
    Content type: Research article Published on:

  36. Identification of genes involved in adaptation and speciation by targeting specific genes of interest has become a plausible strategy also for non-model organisms. We investigated the potential utility of avai...

    Authors: Takahito Shikano, Jetty Ramadevi, Yukinori Shimada and Juha Merilä
    Citation: BMC Genomics 2010 11:334
    Content type: Research article Published on:

  37. Benzo [a]pyrene (B[a]P) exposure induces DNA adducts at all stages of spermatogenesis and in testis, and removal of these lesions is less efficient in nucleotide excision repair deficient Xpc-/- mice than in wild...

    Authors: Nicole Verhofstad, Jeroen LA Pennings, Conny ThM van Oostrom, Jan van Benthem, Frederik J van Schooten, Harry van Steeg and Roger WL Godschalk
    Citation: BMC Genomics 2010 11:333
    Content type: Research article Published on:

  38. The presence of Bacillus in very diverse environments reflects the versatile metabolic capabilities of a widely distributed genus. Traditional phylogenetic analysis based on limited gene sampling is not adequate ...

    Authors: Luis David Alcaraz, Gabriel Moreno-Hagelsieb, Luis E Eguiarte, Valeria Souza, Luis Herrera-Estrella and Gabriela Olmedo
    Citation: BMC Genomics 2010 11:332
    Content type: Research article Published on:

  39. The neonatal bovine mammary fat pad (MFP) surrounding the mammary parenchyma (PAR) is thought to exert proliferative effects on the PAR through secretion of local modulators of growth induced by systemic hormones...

    Authors: Paola Piantoni, Massimo Bionaz, Daniel E Graugnard, Kristy M Daniels, Robin E Everts, Sandra L Rodriguez-Zas, Harris A Lewin, Hurley L Hurley, Michael Akers and Juan J Loor
    Citation: BMC Genomics 2010 11:331
    Content type: Research article Published on:

  40. Although analysis of microRNAs (miRNAs) by DNA microarrays is gaining in popularity, these new technologies have not been adequately validated. We examined within and between platform reproducibility of four m...

    Authors: Carole L Yauk, Andrea Rowan-Carroll, John DH Stead and Andrew Williams
    Citation: BMC Genomics 2010 11:330
    Content type: Research article Published on:

  41. The plant pathogenic basidiomycete Sclerotium rolfsii produces the industrially exploited exopolysaccharide scleroglucan, a polymer that consists of (1 → 3)-β-linked glucose with a (1 → 6)-β-glycosyl branch on ev...

    Authors: Jochen Schmid, Dirk Müller-Hagen, Thomas Bekel, Laura Funk, Ulf Stahl, Volker Sieber and Vera Meyer
    Citation: BMC Genomics 2010 11:329
    Content type: Research article Published on:

  42. Linkage disequilibrium (LD) plays a fundamental role in population genetics and in the current surge of studies to screen for subtle genetic variants affecting complex traits. Methods widely implemented in LD ...

    Authors: Minghui Wang, Tianye Jia, Ning Jiang, Lin Wang, Xiaohua Hu and Zewei Luo
    Citation: BMC Genomics 2010 11:328
    Content type: Methodology article Published on:

  43. Unmethylated stretches of CpG dinucleotides (CpG islands) are an outstanding property of mammal genomes. Conventionally, these regions are detected by sliding window approaches using %G + C, CpG observed/expec...

    Authors: Michael Hackenberg, Guillermo Barturen, Pedro Carpena, Pedro L Luque-Escamilla, Christopher Previti and José L Oliver
    Citation: BMC Genomics 2010 11:327
    Content type: Research article Published on:

  44. Genetic admixture is a common caveat for genetic association analysis. Therefore, it is important to characterize the genetic structure of the population under study to control for this kind of potential bias.

    Authors: Javier Gayán, José J Galan, Antonio González-Pérez, María Eugenia Sáez, María Teresa Martínez-Larrad, Carina Zabena, M Carmen Rivero, Ana Salinas, Reposo Ramírez-Lorca, Francisco J Morón, Jose Luis Royo, Concha Moreno-Rey, Juan Velasco, José M Carrasco, Eva Molero, Carolina Ochoa…
    Citation: BMC Genomics 2010 11:326
    Content type: Research article Published on:

  45. Rhodospirillum centenum is a photosynthetic non-sulfur purple bacterium that favors growth in an anoxygenic, photosynthetic N2-fixing environment. It is emerging as a genetically amenable model organism for molec...

    Authors: Yih-Kuang Lu, Jeremiah Marden, Mira Han, Wesley D Swingley, Stephen D Mastrian, Sugata Roy Chowdhury, Jicheng Hao, Tamer Helmy, Sun Kim, Ahmet A Kurdoglu, Heather J Matthies, David Rollo, Paul Stothard, Robert E Blankenship, Carl E Bauer and Jeffrey W Touchman
    Citation: BMC Genomics 2010 11:325
    Content type: Research article Published on:

  46. The cancer stem cell (CSC) hypothesis proposes that a population of tumor cells bearing stem cell properties is responsible for the origin and maintenance of tumors. Normal and cancer stem cells possess the ab...

    Authors: Maria Ana Duhagon, Elaine M Hurt, Jose R Sotelo-Silveira, Xiaohu Zhang and William L Farrar
    Citation: BMC Genomics 2010 11:324
    Content type: Research article Published on:

  47. The GeneChip®Medicago Genome Array, developed for Medicago truncatula, is a suitable platform for transcript profiling in tetraploid alfalfa [Medicago sativa (L.) subsp. sativa]. However, previous research involv...

    Authors: S Samuel Yang, Wayne Wenzhong Xu, Mesfin Tesfaye, JoAnn FS Lamb, Hans-Joachim G Jung, Kathryn A VandenBosch, Carroll P Vance and John W Gronwald
    Citation: BMC Genomics 2010 11:323
    Content type: Research article Published on:

  48. The biological dimensions of genes are manifold. These include genomic properties, (e.g., X/autosomal linkage, recombination) and functional properties (e.g., expression level, tissue specificity). Multiple pr...

    Authors: Shuwei Li, Ching-Hua Shih and Michael H Kohn
    Citation: BMC Genomics 2010 11:322
    Content type: Research article Published on:

  49. Invasive amoebiasis, caused by infection with the human parasite Entamoeba histolytica remains a major cause of morbidity and mortality in some less-developed countries. Genetically E. histolytica exhibits a numb...

    Authors: Derek M Huntley, Ioannis Pandis, Sarah A Butcher and John P Ackers
    Citation: BMC Genomics 2010 11:321
    Content type: Research article Published on:

  50. MicroRNAs (miRNAs) are a large class of tiny non-coding RNAs (~22-24 nt) that regulate diverse biological processes at the posttranscriptional level by controlling mRNA stability or translation. As a molecular...

    Authors: Limei Qin, Yaosheng Chen, Yuna Niu, Weiquan Chen, Qiwei Wang, Shuqi Xiao, Anning Li, Ying Xie, Jing Li, Xiao Zhao, Zuyong He and Delin Mo
    Citation: BMC Genomics 2010 11:320
    Content type: Research article Published on:

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BMC Genomics

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