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  1. Segmental duplication and deletion were implicated for a region containing the human immunoglobulin heavy chain variable (IGHV) gene segments, 1.9III/hv3005 (possible allelic variants of IGHV3-30) and hv3019b9...

    Authors: Sreemanta Pramanik, Xiangfeng Cui, Hui-Yun Wang, Nyam-Osor Chimge, Guohong Hu, Li Shen, Richeng Gao and Honghua Li
    Citation: BMC Genomics 2011 12:78
    Content type: Research article Published on:

  2. Heat shock response in eukaryotes is transcriptionally regulated by conserved heat shock transcription factors (Hsfs). Hsf genes are represented by a large multigene family in plants and investigation of the H...

    Authors: Yong-Xiang Lin, Hai-Yang Jiang, Zhang-Xin Chu, Xiu-Li Tang, Su-Wen Zhu and Bei-Jiu Cheng
    Citation: BMC Genomics 2011 12:76
    Content type: Research article Published on:

  3. Although primarily known as the site of ribosome subunit production, the nucleolus is involved in numerous and diverse cellular processes. Recent large-scale proteomics projects have identified thousands of hu...

    Authors: Michelle S Scott, François-Michel Boisvert, Angus I Lamond and Geoffrey J Barton
    Citation: BMC Genomics 2011 12:74
    Content type: Research article Published on:

  6. M. catarrhalis is a gram-negative, gamma-proteobacterium and an opportunistic human pathogen associated with otitis media (OM) and exacerbations of chronic obstructive pulmonary disease (COPD). With direct and in...

    Authors: Jeremiah J Davie, Josh Earl, Stefan PW de Vries, Azad Ahmed, Fen Z Hu, Hester J Bootsma, Kim Stol, Peter WM Hermans, Robert M Wadowsky, Garth D Ehrlich, John P Hays and Anthony A Campagnari
    Citation: BMC Genomics 2011 12:70
    Content type: Research article Published on:

  7. Sessile bivalves of the genus Mytilus are suspension feeders relatively tolerant to a wide range of environmental changes, used as sentinels in ecotoxicological investigations and marketed worldwide as seafood. M...

    Authors: Paola Venier, Laura Varotto, Umberto Rosani, Caterina Millino, Barbara Celegato, Filippo Bernante, Gerolamo Lanfranchi, Beatriz Novoa, Philippe Roch, Antonio Figueras and Alberto Pallavicini
    Citation: BMC Genomics 2011 12:69
    Content type: Research article Published on:

  8. Eukaryotic translation initiation factor 4G (eIF4G) is thought to influence the translational efficiencies of cellular mRNAs by its roles in forming an eIF4F-mRNA-PABP mRNP that is competent for attachment of ...

    Authors: Eun-Hee Park, Fan Zhang, Jonas Warringer, Per Sunnerhagen and Alan G Hinnebusch
    Citation: BMC Genomics 2011 12:68
    Content type: Research article Published on:

  9. Chinese hamster ovary (CHO) cells are among the most widely used hosts for therapeutic protein production. Yet few genomic resources are available to aid in engineering high-producing cell lines.

    Authors: Stephanie Hammond, Jeffrey C Swanberg, Mihailo Kaplarevic and Kelvin H Lee
    Citation: BMC Genomics 2011 12:67
    Content type: Research article Published on:

  10. Methods for gene-class testing, such as Gene Set Enrichment Analysis (GSEA), incorporate biological knowledge into the analysis and interpretation of microarray data by comparing gene expression patterns to pa...

    Authors: Michael A Thomas, Luobin Yang, Barbara J Carter and Rebecca D Klaper
    Citation: BMC Genomics 2011 12:66
    Content type: Research article Published on:

  11. Scanning the genome with high density SNP markers has become a standard approach for identifying regions of the genome showing substantial between-population genetic differentiation, and thus evidence of diver...

    Authors: Pamela Wiener, Mohammad A Edriss, John L Williams, David Waddington, Andrew Law, John A Woolliams and Beatriz Gutiérrez-Gil
    Citation: BMC Genomics 2011 12:65
    Content type: Research article Published on:

  13. After several years in the juvenile phase, trees undergo flowering transition to become mature (florally competent) trees. This transition depends on the balanced expression of a complex network of genes that ...

    Authors: Jin-Zhi Zhang, Xiao-Yan Ai, Lei-Ming Sun, Dong-Liang Zhang, Wen-Wu Guo, Xiu-Xin Deng and Chun-Gen Hu
    Citation: BMC Genomics 2011 12:63
    Content type: Research article Published on:

  14. Heliconius butterflies are an excellent system for studies of adaptive convergent and divergent phenotypic traits. Wing colour patterns are used as signals to both predators and potential mates and are inherited ...

    Authors: Alison K Surridge, Sara Lopez-Gomollon, Simon Moxon, Luana S Maroja, Tina Rathjen, Nicola J Nadeau, Tamas Dalmay and Chris D Jiggins
    Citation: BMC Genomics 2011 12:62
    Content type: Research article Published on:

  15. Most evolutionary developmental biology ("evo-devo") studies of emerging model organisms focus on small numbers of candidate genes cloned individually using degenerate PCR. However, newly available sequencing ...

    Authors: Ben Ewen-Campen, Nathan Shaner, Kristen A Panfilio, Yuichiro Suzuki, Siegfried Roth and Cassandra G Extavour
    Citation: BMC Genomics 2011 12:61
    Content type: Research article Published on:

  17. Many plants have large and complex genomes with an abundance of repeated sequences. Many plants are also polyploid. Both of these attributes typify the genome architecture in the tribe Triticeae, whose members...

    Authors: Frank M You, Naxin Huo, Karin R Deal, Yong Q Gu, Ming-Cheng Luo, Patrick E McGuire, Jan Dvorak and Olin D Anderson
    Citation: BMC Genomics 2011 12:59
    Content type: Methodology article Published on:

  19. The bi-directional communication between the oocyte and its companion cumulus cells (CCs) is crucial for development and functions of both cell types. Transcripts that are exclusively expressed either in oocyt...

    Authors: A Regassa, F Rings, M Hoelker, U Cinar, E Tholen, C Looft, K Schellander and D Tesfaye
    Citation: BMC Genomics 2011 12:57
    Content type: Research article Published on:

  20. The whitefly Trialeurodes vaporariorum is an economically important crop pest in temperate regions that has developed resistance to most classes of insecticides. However, the molecular mechanisms underlying resis...

    Authors: Nikos Karatolos, Yannick Pauchet, Paul Wilkinson, Ritika Chauhan, Ian Denholm, Kevin Gorman, David R Nelson, Chris Bass, Richard H ffrench-Constant and Martin S Williamson
    Citation: BMC Genomics 2011 12:56
    Content type: Research article Published on:

  21. Searching for associations between genetic variants and complex diseases has been a very active area of research for over two decades. More than 51,000 potential associations have been studied and published, a...

    Authors: Urko M Marigorta, Oscar Lao, Ferran Casals, Francesc Calafell, Carlos Morcillo-Suárez, Rui Faria, Elena Bosch, François Serra, Jaume Bertranpetit, Hernán Dopazo and Arcadi Navarro
    Citation: BMC Genomics 2011 12:55
    Content type: Research article Published on:

  22. Cancer is commonly associated with widespread disruption of DNA methylation, chromatin modification and miRNA expression. In this study, we established a robust discovery pipeline to identify epigenetically de...

    Authors: Toby Hulf, Tennille Sibbritt, Erik D Wiklund, Saul Bert, Dario Strbenac, Aaron L Statham, Mark D Robinson and Susan J Clark
    Citation: BMC Genomics 2011 12:54
    Content type: Methodology article Published on:

  23. Single nucleotide polymorphisms (SNPs) have become the marker of choice for genome-wide association studies. In order to provide the best genome coverage for the analysis of performance and production traits, ...

    Authors: Shikai Liu, Zunchun Zhou, Jianguo Lu, Fanyue Sun, Shaolin Wang, Hong Liu, Yanliang Jiang, Huseyin Kucuktas, Ludmilla Kaltenboeck, Eric Peatman and Zhanjiang Liu
    Citation: BMC Genomics 2011 12:53
    Content type: Research article Published on:

  24. The toxigenic fungal plant pathogen Fusarium graminearum compromises wheat production worldwide. Azole fungicides play a prominent role in controlling this pathogen. Sequencing of its genome stimulated the develo...

    Authors: Rayko Becher, Fabian Weihmann, Holger B Deising and Stefan GR Wirsel
    Citation: BMC Genomics 2011 12:52
    Content type: Research article Published on:

  26. High-throughput screening using RNAi is a powerful gene discovery method but is often complicated by false positive and false negative results. Whereas false positive results associated with RNAi reagents has ...

    Authors: Matthew Booker, Anastasia A Samsonova, Young Kwon, Ian Flockhart, Stephanie E Mohr and Norbert Perrimon
    Citation: BMC Genomics 2011 12:50
    Content type: Research article Published on:

  27. Rice blast is the most threatening disease to cultivated rice. Magnaporthe oryzae, its causal agent, is likely to encounter environmental challenges during invasive growth in its host plants that require shifts i...

    Authors: Sandra M Mathioni, André Beló, Christopher J Rizzo, Ralph A Dean and Nicole M Donofrio
    Citation: BMC Genomics 2011 12:49
    Content type: Research article Published on:

  28. The bumblebee Bombus terrestris is an ecologically and economically important pollinator and has become an important biological model system. To study fundamental evolutionary questions at the genomic level, a hi...

    Authors: Eckart Stolle, Lena Wilfert, Regula Schmid-Hempel, Paul Schmid-Hempel, Michael Kube, Richard Reinhardt and Robin FA Moritz
    Citation: BMC Genomics 2011 12:48
    Content type: Research article Published on:

  29. MicroRNAs (miRNAs) constitute a class of single-stranded RNAs which play a crucial role in regulating development and controlling gene expression by targeting mRNAs and triggering either translation repression...

    Authors: Mariana C Simões, Jonathan Lee, Appolinaire Djikeng, Gustavo C Cerqueira, Adhemar Zerlotini, Rosiane A da Silva-Pereira, Andrew R Dalby, Philip LoVerde, Najib M El-Sayed and Guilherme Oliveira
    Citation: BMC Genomics 2011 12:47
    Content type: Research article Published on:

  30. The piRNA pathway operates in animal germ lines to ensure genome integrity through retrotransposon silencing. The Piwi protein-associated small RNAs (piRNAs) guide Piwi proteins to retrotransposon transcripts,...

    Authors: Philipp Berninger, Lukasz Jaskiewicz, Mohsen Khorshid and Mihaela Zavolan
    Citation: BMC Genomics 2011 12:46
    Content type: Research article Published on:

  32. The ubiquitin(Ub)-proteasome pathway is implicated in the regulation of a variety of cellular functions and plays a major role in stress response in eukaryotic cells, by targeting misfolded and damaged protein...

    Authors: Laura Gatti, Kwang L Hoe, Jacqueline Hayles, Sabina C Righetti, Nives Carenini, Laura Dal Bo, Dong U Kim, Han O Park and Paola Perego
    Citation: BMC Genomics 2011 12:44
    Content type: Research article Published on:

  33. Identifying the functional importance of the millions of single nucleotide polymorphisms (SNPs) in the human genome is a difficult challenge. Therefore, a reverse strategy, which identifies functionally import...

    Authors: Muna Affara, Benjamin J Dunmore, Deborah A Sanders, Nicola Johnson, Cristin G Print and D Stephen Charnock-Jones
    Citation: BMC Genomics 2011 12:43
    Content type: Research article Published on:

  34. Comprehensive sequence characterization across the MHC is important for successful organ transplantation and genetic association studies. To this end, we have developed an automated sample preparation, molecul...

    Authors: Rachel L Erlich, Xiaoming Jia, Scott Anderson, Eric Banks, Xiaojiang Gao, Mary Carrington, Namrata Gupta, Mark A DePristo, Matthew R Henn, Niall J Lennon and Paul IW de Bakker
    Citation: BMC Genomics 2011 12:42
    Content type: Methodology article Published on:

  35. The changes in storage reserve accumulation during maize (Zea mays L.) grain maturation are well established. However, the key molecular determinants controlling carbon flux to the grain and the partitioning of c...

    Authors: Hans Hartings, Massimiliano Lauria, Nadia Lazzaroni, Raul Pirona and Mario Motto
    Citation: BMC Genomics 2011 12:41
    Content type: Research article Published on:

  36. Tuberculosis is an infectious bacterial disease in humans caused primarily by Mycobacterium tuberculosis, and infects one-third of the world's total population. Mycobacterium bovis bacillus Calmette-Guérin (BCG) ...

    Authors: Jianhua Zheng, Candong Wei, Lina Zhao, Liguo Liu, Wenchuan Leng, Weijun Li and Qi Jin
    Citation: BMC Genomics 2011 12:40
    Content type: Research article Published on:

  37. Gummosis and root rot caused by Phytophthora are among the most economically important diseases in citrus. Four F1 resistant hybrids (Pool R), and four F1 susceptible hybrids (Pool S) to P. parasitica, were selec...

    Authors: Leonardo P Boava, Mariângela Cristofani-Yaly, Valéria S Mafra, Karen Kubo, Luciano T Kishi, Marco A Takita, Marcelo Ribeiro-Alves and Marcos A Machado
    Citation: BMC Genomics 2011 12:39
    Content type: Research article Published on:

  38. Rhizopus oryzae is a zygomycete filamentous fungus, well-known as a saprobe ubiquitous in soil and as a pathogenic/spoilage fungus, causing Rhizopus rot and mucomycoses.

    Authors: Evy Battaglia, Isabelle Benoit, Joost van den Brink, Ad Wiebenga, Pedro M Coutinho, Bernard Henrissat and Ronald P de Vries
    Citation: BMC Genomics 2011 12:38
    Content type: Research article Published on:

  39. Despite virtually identical DNA sequences between the sexes, sexual dimorphism is a widespread phenomenon in nature. To a large extent the systematic differences between the sexes must therefore arise from pro...

    Authors: Sara Naurin, Bengt Hansson, Dennis Hasselquist, Yong-Hwan Kim and Staffan Bensch
    Citation: BMC Genomics 2011 12:37
    Content type: Research article Published on:

  40. Estrogen receptors alpha (ERα) and beta (ERβ) are transcription factors (TFs) that mediate estrogen signaling and define the hormone-responsive phenotype of breast cancer (BC). The two receptors can be found c...

    Authors: Oli MV Grober, Margherita Mutarelli, Giorgio Giurato, Maria Ravo, Luigi Cicatiello, Maria Rosaria De Filippo, Lorenzo Ferraro, Giovanni Nassa, Maria Francesca Papa, Ornella Paris, Roberta Tarallo, Shujun Luo, Gary P Schroth, Vladimir Benes and Alessandro Weisz
    Citation: BMC Genomics 2011 12:36
    Content type: Research article Published on:

  41. Although nowaday it is broadly accepted that mitochondrial DNA (mtDNA) may undergo recombination, the frequency of such recombination remains controversial. Its estimation is not straightforward, as recombinat...

    Authors: Svenja Sammler, Christoph Bleidorn and Ralph Tiedemann
    Citation: BMC Genomics 2011 12:35
    Content type: Research article Published on:

  42. Pathogen-associated molecular patterns (PAMPs) are structural components of pathogens such as lipopolysaccharide (LPS) and peptidoglycan (PGN) from bacterial cell walls. PAMP-recognition by the host results in...

    Authors: Sebastian Boltaña, Felipe Reyes-Lopez, Davinia Morera, Frederick Goetz and Simon A MacKenzie
    Citation: BMC Genomics 2011 12:34
    Content type: Research article Published on:

  44. The dual concepts of pan and core genomes have been widely adopted as means to assess the distribution of gene families within microbial species and genera. The core genome is the set of genes shared by a grou...

    Authors: Andrey O Kislyuk, Bart Haegeman, Nicholas H Bergman and Joshua S Weitz
    Citation: BMC Genomics 2011 12:32
    Content type: Methodology article Published on:

  45. The products of cyp19, dax, foxl2, mis, sf1 and sox9 have each been associated with sex-determining processes among vertebrates. We provide evidence for expression of these regulators very early in salmonid devel...

    Authors: Kristian R von Schalburg, Motoshige Yasuike, Ryosuke Yazawa, Johan G de Boer, Linda Reid, Stacy So, Adrienne Robb, Eric B Rondeau, Ruth B Phillips, William S Davidson and Ben F Koop
    Citation: BMC Genomics 2011 12:31
    Content type: Research article Published on:

  46. Transcriptome sequencing data has become an integral component of modern genetics, genomics and evolutionary biology. However, despite advances in the technologies of DNA sequencing, such data are lacking for ...

    Authors: Maria D Logacheva, Artem S Kasianov, Dmitriy V Vinogradov, Tagir H Samigullin, Mikhail S Gelfand, Vsevolod J Makeev and Aleksey A Penin
    Citation: BMC Genomics 2011 12:30
    Content type: Research article Published on:

  47. Stem cells and their niches are studied in many systems, but mammalian germ stem cells (GSC) and their niches are still poorly understood. In rat testis, spermatogonia and undifferentiated Sertoli cells prolif...

    Authors: Stephan Ryser, Dominique Glauser, Michelle Vigier, Yong Qiang Zhang, Philippe Tachini, Werner Schlegel, Philippe Durand and Irmgard Irminger-Finger
    Citation: BMC Genomics 2011 12:29
    Content type: Research article Published on:

  48. Ascochyta blight, caused by Mycosphaerella pinodes is one of the most important pea pathogens. However, little is known about the genes and mechanisms of resistance acting against M. pinodes in pea. Resistance id...

    Authors: Sara Fondevilla, Helge Küster, Franziska Krajinski, José I Cubero and Diego Rubiales
    Citation: BMC Genomics 2011 12:28
    Content type: Research article Published on:

  49. The epigenetic regulator Histone Deacetylase 1 (Hdac1) is required for specification and patterning of neurones and myelinating glia during development of the vertebrate central nervous system (CNS). This co-o...

    Authors: Michael RM Harrison, Aristophanes S Georgiou, Herman P Spaink and Vincent T Cunliffe
    Citation: BMC Genomics 2011 12:24
    Content type: Research article Published on:

  50. One member of the W family of human endogenous retroviruses (HERV) appears to have been functionally adopted by the human host. Nevertheless, a highly diversified and regulated transcription from a range of HE...

    Authors: Fang Li, Christoffer Nellåker, Robert H Yolken and Håkan Karlsson
    Citation: BMC Genomics 2011 12:22
    Content type: Research article Published on:

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BMC Genomics

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