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  1. Cell-wall digestibility is the major target for improving the feeding value of forage maize. An understanding of the molecular basis for cell-wall digestibility is crucial towards breeding of highly digestible...

    Authors: Chun Shi, Anna Uzarowska, Milena Ouzunova, Matthias Landbeck, Gerhard Wenzel and Thomas Lübberstedt

    Citation: BMC Genomics 2007 8:22

    Content type: Research article

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  2. Transcription regulatory networks are composed of protein-DNA interactions between transcription factors and their target genes. A long-term goal in genome biology is to map protein-DNA interaction networks of...

    Authors: M Inmaculada Barrasa, Philippe Vaglio, Fabien Cavasino, Laurent Jacotot and Albertha JM Walhout

    Citation: BMC Genomics 2007 8:21

    Content type: Database

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  3. Dystrophins and dystrobrevins are distantly related proteins with important but poorly understood roles in the function of metazoan muscular and neuronal tissues. Defects in them and their associated proteins ...

    Authors: Hong Jin, Sipin Tan, Jane Hermanowski, Sabrina Böhm, Sabrina Pacheco, Joanna M McCauley, Marc J Greener, Yaniv Hinits, Simon M Hughes, Paul T Sharpe and Roland G Roberts

    Citation: BMC Genomics 2007 8:19

    Content type: Research article

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  4. Several lines of evidence support the existence of novel genes and other transcribed units which have not yet been annotated in the Arabidopsis genome. Two gene prediction programs which make use of comparativ...

    Authors: William A Moskal Jr, Hank C Wu, Beverly A Underwood, Wei Wang, Christopher D Town and Yongli Xiao

    Citation: BMC Genomics 2007 8:18

    Content type: Research article

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  5. The normalization of DNA microarrays allows comparison among samples by adjusting for individual hybridization intensities. The approaches most commonly used are global normalization methods that are based on ...

    Authors: Paolo Fardin, Stefano Moretti, Barbara Biasotti, Annamaria Ricciardi, Stefano Bonassi and Luigi Varesio

    Citation: BMC Genomics 2007 8:17

    Content type: Research article

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  6. Meningiomas are the most common intracranial neoplasias, representing a clinically and histopathologically heterogeneous group of tumors. The neurofibromatosis type 2 (NF2) tumor suppressor is the only gene known...

    Authors: Caisa M Hansson, Patrick G Buckley, Giedre Grigelioniene, Arkadiusz Piotrowski, Anders R Hellström, Kiran Mantripragada, Caroline Jarbo, Tiit Mathiesen and Jan P Dumanski

    Citation: BMC Genomics 2007 8:16

    Content type: Research article

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  7. Copy number variants (CNVs) account for a significant proportion of normal phenotypic variation and may have an important role in human pathological variation. The α-defensin cluster on human chromosome 8p23.1...

    Authors: Ester Ballana, Juan Ramón González, Nina Bosch and Xavier Estivill

    Citation: BMC Genomics 2007 8:14

    Content type: Research article

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  8. Cryptosporidium parvum is a unicellular eukaryote in the phylum Apicomplexa. It is an obligate intracellular parasite that causes diarrhea and is a significant AIDS-related pathogen. Cryptosporidium parvum is not...

    Authors: Nandita Mullapudi, Cheryl A Lancto, Mitchell S Abrahamsen and Jessica C Kissinger

    Citation: BMC Genomics 2007 8:13

    Content type: Research article

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  9. The establishment of C4 photosynthesis in maize is associated with differential accumulation of gene transcripts and proteins between bundle sheath and mesophyll photosynthetic cell types. We have physically sepa...

    Authors: Ruairidh JH Sawers, Peng Liu, Katya Anufrikova, JT Gene Hwang and Thomas P Brutnell

    Citation: BMC Genomics 2007 8:12

    Content type: Research article

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  10. Large-scale mutagenesis screens in the zebrafish employing the mutagen ENU have isolated several hundred mutant loci that represent putative developmental control genes. In order to realize the potential of su...

    Authors: Robert Geisler, Gerd-Jörg Rauch, Silke Geiger-Rudolph, Andrea Albrecht, Frauke van Bebber, Andrea Berger, Elisabeth Busch-Nentwich, Ralf Dahm, Marcus PS Dekens, Christopher Dooley, Alexandra F Elli, Ines Gehring, Horst Geiger, Maria Geisler, Stefanie Glaser, Scott Holley…

    Citation: BMC Genomics 2007 8:11

    Content type: Research article

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  11. Many of the most effective high-throughput protocols for SNP genotyping employ microarrays. Genotypes are assessed by comparing the signal intensities that derive from the hybridization of different allele-spe...

    Authors: Arianna Cozza, Francesco Morandin, Silvia Giulia Galfrè, Veronica Mariotti, Roberto Marangoni and Silvia Pellegrini

    Citation: BMC Genomics 2007 8:10

    Content type: Methodology article

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  12. The Ashbya Genome Database (AGD) 3.0 is an innovative cross-species genome and transcriptome browser based on release 40 of the Ensembl developer environment.

    Authors: Alexandre Gattiker, Riccarda Rischatsch, Philippe Demougin, Sylvia Voegeli, Fred S Dietrich, Peter Philippsen and Michael Primig

    Citation: BMC Genomics 2007 8:9

    Content type: Database

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  13. In higher eukaryotes DNA methylation regulates important biological functions including silencing of gene expression and protection from adverse effects of retrotransposons. In the protozoan parasite Entamoeba hi...

    Authors: Ibne Karim M Ali, Gretchen M Ehrenkaufer, Jason A Hackney and Upinder Singh

    Citation: BMC Genomics 2007 8:7

    Content type: Research article

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  14. Saliva of blood-sucking arthropods contains a cocktail of antihemostatic agents and immunomodulators that help blood feeding. Mosquitoes additionally feed on sugar meals and have specialized regions of their g...

    Authors: José MC Ribeiro, Bruno Arcà, Fabrizio Lombardo, Eric Calvo, Van My Phan, Prafulla K Chandra and Stephen K Wikel

    Citation: BMC Genomics 2007 8:6

    Content type: Research article

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  15. Single nucleotide polymorphisms (SNPs) are the most common source of genetic variation in eukaryotic species and have become an important marker for genetic studies. The mosquito Anopheles funestus is one of the ...

    Authors: Charles S Wondji, Janet Hemingway and Hilary Ranson

    Citation: BMC Genomics 2007 8:5

    Content type: Research article

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  16. Corynebacterium glutamicum is a gram-positive soil bacterium widely used for the industrial production of amino acids. There is great interest in the examination of the molecular mechanism of transcription contro...

    Authors: Christof Larisch, Diana Nakunst, Andrea T Hüser, Andreas Tauch and Jörn Kalinowski

    Citation: BMC Genomics 2007 8:4

    Content type: Research article

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  17. The low-shear microgravity environment, modeled by rotating suspension culture bioreactors called high aspect ratio vessels (HARVs), allows investigation in ground-based studies of the effects of microgravity ...

    Authors: Kathy B Sheehan, Kate McInnerney, Boloroo Purevdorj-Gage, Sara D Altenburg and Linda E Hyman

    Citation: BMC Genomics 2007 8:3

    Content type: Research article

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  18. A promising application of the huge amounts of genetic data currently available lies in developing a better understanding of complex diseases, such as cancer. Analysis of publicly available databases can help ...

    Authors: Abdel Aouacheria, Vincent Navratil, Ricardo López-Pérez, Norma C Gutiérrez, Alexander Churkin, Danny Barash, Dominique Mouchiroud and Christian Gautier

    Citation: BMC Genomics 2007 8:2

    Content type: Research article

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  19. The homologues of human disease genes are expected to contribute to better understanding of physiological and pathogenic processes. We made use of the present availability of vertebrate genomic sequences, and ...

    Authors: Marko Premzl and Vera Gamulin

    Citation: BMC Genomics 2007 8:1

    Content type: Research article

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  20. Recently, several high-resolution methods of chromosome analysis have been developed. It is important to compare these methods and to select reliable combinations of techniques to analyze complex chromosomal r...

    Authors: Eva Darai-Ramqvist, Teresita Diaz de Ståhl, Agneta Sandlund, Kiran Mantripragada, George Klein, Jan Dumanski, Stefan Imreh and Maria Kost-Alimova

    Citation: BMC Genomics 2006 7:330

    Content type: Methodology article

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  21. The local environment of single nucleotide polymorphisms (SNPs) contains abundant genetic information for the study of mechanisms of mutation, genome evolution, and causes of diseases. Recent studies revealed ...

    Authors: Daekwan Seo, Cizhong Jiang and Zhongming Zhao

    Citation: BMC Genomics 2006 7:329

    Content type: Methodology article

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  22. Presently, multiple options exist for conducting gene expression profiling studies in swine. In order to determine the performance of some of the existing microarrays, Affymetrix Porcine, Affymetrix Human U133...

    Authors: Shengdar Tsai, Bashir Mir, Amy C Martin, Jose L Estrada, Steve R Bischoff, Wen-ping Hsieh, Joseph P Cassady, Bradley A Freking, Dan J Nonneman, Gary A Rohrer and Jorge A Piedrahita

    Citation: BMC Genomics 2006 7:328

    Content type: Research article

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  23. Recently, genomic sequencing efforts were finished for Oryza sativa (cultivated rice) and Arabidopsis thaliana (Arabidopsis). Additionally, these two plant species have extensive cDNA and expressed sequence tag (...

    Authors: Matthew A Campbell, Brian J Haas, John P Hamilton, Stephen M Mount and C Robin Buell

    Citation: BMC Genomics 2006 7:327

    Content type: Research article

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  24. The strong linkage disequilibrium (LD) recently found in genic or exonic regions of the human genome demonstrated that LD can be increased by evolutionary mechanisms that select for functionally important loci...

    Authors: Mamoru Kato, Akihiro Sekine, Yozo Ohnishi, Todd A Johnson, Toshihiro Tanaka, Yusuke Nakamura and Tatsuhiko Tsunoda

    Citation: BMC Genomics 2006 7:326

    Content type: Research article

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  25. Alternative splicing is a mechanism for increasing protein diversity by excluding or including exons during post-transcriptional processing. Alternatively spliced proteins are particularly relevant in oncology...

    Authors: Paul J Gardina, Tyson A Clark, Brian Shimada, Michelle K Staples, Qing Yang, James Veitch, Anthony Schweitzer, Tarif Awad, Charles Sugnet, Suzanne Dee, Christopher Davies, Alan Williams and Yaron Turpaz

    Citation: BMC Genomics 2006 7:325

    Content type: Research article

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  26. The prevalence of high resolution profiling of genomes has created a need for the integrative analysis of information generated from multiple methodologies and platforms. Although the majority of data in the p...

    Authors: Raj Chari, William W Lockwood, Bradley P Coe, Anna Chu, Devon Macey, Andrew Thomson, Jonathan J Davies, Calum MacAulay and Wan L Lam

    Citation: BMC Genomics 2006 7:324

    Content type: Research article

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  27. Microsatellites are extremely common in plant genomes, and in particular, they are significantly enriched in the 5' noncoding regions. Although some 5' noncoding microsatellites involved in gene regulation hav...

    Authors: Lida Zhang, Kaijing Zuo, Fei Zhang, Youfang Cao, Jiang Wang, Yidong Zhang, Xiaofen Sun and Kexuan Tang

    Citation: BMC Genomics 2006 7:323

    Content type: Research article

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  28. The quail and chicken major histocompatibility complex (Mhc) genomic regions have a similar overall organization but differ markedly in that the quail has an expanded number of duplicated class I, class IIB, natu...

    Authors: Kazuyoshi Hosomichi, Takashi Shiina, Shingo Suzuki, Masayuki Tanaka, Sayoko Shimizu, Shigehisa Iwamoto, Hiromi Hara, Yutaka Yoshida, Jerzy K Kulski, Hidetoshi Inoko and Kei Hanzawa

    Citation: BMC Genomics 2006 7:322

    Content type: Research article

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  29. Up to now, microarray data are mostly assessed in context with only one or few parameters characterizing the experimental conditions under study. More explicit experiment annotations, however, are highly usefu...

    Authors: Kurt Fellenberg, Christian H Busold, Olaf Witt, Andrea Bauer, Boris Beckmann, Nicole C Hauser, Marcus Frohme, Stefan Winter, Jürgen Dippon and Jörg D Hoheisel

    Citation: BMC Genomics 2006 7:319

    Content type: Methodology article

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  30. Many marketed therapeutic agents have been developed to modulate the function of G protein-coupled receptors (GPCRs). The regulators of G-protein signaling (RGS proteins) are also being examined as potential d...

    Authors: Yu-Ching Fang, Wei-Hsin Sun, Li-Cheng Wu, Hsien-Da Huang, Hsueh-Fen Juan and Jorng-Tzong Horng

    Citation: BMC Genomics 2006 7:317

    Content type: Database

    Published on:

  31. Maturation of spermatozoa, including development of motility and the ability to fertilize the oocyte, occurs during transit through the microenvironment of the epididymis. Comprehensive understanding of sperm ...

    Authors: Jungsu Oh, Jiae Lee, Jong-Min Woo, Eunyoung Choi, Inju Park, Cecil Han, Namhoe Baek, Hoyong Lee, Do Han Kim and Chunghee Cho

    Citation: BMC Genomics 2006 7:314

    Content type: Research article

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  32. Upon exposure to agents that damage DNA, Saccharomyces cerevisiae undergo widespread reprogramming of gene expression. Such a vast response may be due not only to damage to DNA but also damage to proteins, RNA, a...

    Authors: Rebecca C Fry, Michael S DeMott, Joseph P Cosgrove, Thomas J Begley, Leona D Samson and Peter C Dedon

    Citation: BMC Genomics 2006 7:313

    Content type: Research article

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  33. Formalin-fixed paraffin-embedded (FFPE) tissues represent the largest source of archival biological material available for genomic studies of human cancer. Therefore, it is desirable to develop methods that en...

    Authors: Sarit Aviel-Ronen, Chang Qi Zhu, Bradley P Coe, Ni Liu, Spencer K Watson, Wan L Lam and Ming Sound Tsao

    Citation: BMC Genomics 2006 7:312

    Content type: Methodology article

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  34. The signals that determine the specificity and efficiency of splicing are multiple and complex, and are not fully understood. Among other factors, the relative contributions of different mechanisms appear to d...

    Authors: Colin N Dewey, Igor B Rogozin and Eugene V Koonin

    Citation: BMC Genomics 2006 7:311

    Content type: Research article

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  35. Rice blast, caused by the fungal pathogen Magnaporthe grisea, is a devastating disease causing tremendous yield loss in rice production. The public availability of the complete genome sequence of M. grisea provid...

    Authors: Malali Gowda, RC Venu, Mohan B Raghupathy, Kan Nobuta, Huameng Li, Rod Wing, Eric Stahlberg, Sean Couglan, Christian D Haudenschild, Ralph Dean, Baek-Hie Nahm, Blake C Meyers and Guo-Liang Wang

    Citation: BMC Genomics 2006 7:310

    Content type: Research article

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  36. One of the most crucial tasks for a cell to ensure its long term survival is preserving the integrity of its genetic heritage via maintenance of DNA structure and sequence. While the DNA damage response in the...

    Authors: Michael G Benton, Swetha Somasundaram, Jeremy D Glasner and Sean P Palecek

    Citation: BMC Genomics 2006 7:305

    Content type: Research article

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  37. Repetitive elements comprise ~45% of mammalian genomes and are increasingly known to impact genomic function by contributing to the genomic architecture, by direct regulation of gene expression and by affectin...

    Authors: Ralph T Wiedmann, Dan J Nonneman and John W Keele

    Citation: BMC Genomics 2006 7:304

    Content type: Research article

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  38. Fission yeast cells undergo sexual differentiation in response to nitrogen starvation. In this process haploid M and P cells first mate to form diploid zygotes, which then enter meiosis and sporulate. Prior to...

    Authors: Yongtao Xue-Franzén, Søren Kjærulff, Christian Holmberg, Anthony Wright and Olaf Nielsen

    Citation: BMC Genomics 2006 7:303

    Content type: Research article

    Published on:

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