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A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers
Michael A Quail, Miriam Smith, Paul Coupland, Thomas D Otto, Simon R Harris, Thomas R Connor, Anna Bertoni, Harold P Swerdlow, Yong Gu BMC Genomics 2012, 13:341 (24 July 2012)
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Editor’s summary
Sequencing of four microbial genomes with widely differing GC content is compared on performance using three major new platforms: Ion Torrent PGM, Pacific Biosciences RS, and illumina MiSeq versus Illumina HiSeq system.
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MicroRNAs miR-26a, miR-26b, and miR-29b accelerate osteogenic differentiation of unrestricted somatic stem cells from human cord blood
Hans-Ingo Trompeter, Janine Dreesen, Eugenie Hermann, Katharina M Iwaniuk, Markus Hafner, Neil Renwick, Thomas Tuschl, Peter Wernet BMC Genomics 2013, 14:111 (19 February 2013)
Abstract | Provisional PDF
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3.
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Phylogenetic patterns of emergence of new genes support a model of frequent de novo evolution
Rafik Neme, Diethard Tautz BMC Genomics 2013, 14:117 (21 February 2013)
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4.
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Neurocarta: aggregating and sharing disease-gene relations for the neurosciences
Elodie Portales-Casamar, Carolyn Ch¿ng, Frances Lui, Nicolas St-Georges, Anton Zoubarev, Artemis Y Lai, Mark Lee, Cathy Kwok, Willie Kwok, Luchia Tseng, Paul Pavlidis BMC Genomics 2013, 14:129 (26 February 2013)
Abstract | Provisional PDF
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5.
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A first-generation microsatellite-based genetic linkage map of the Siberian jay (Perisoreus infaustus): insights into avian genome evolution
Sonja Jaari, Meng-Hua Li, Juha Merilä BMC Genomics 2009, 10:1 (3 January 2009)
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| PubMed | Cited on BioMed Central
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Genome evolution driven by host adaptations results in a more virulent and antimicrobial-resistant Streptococcus pneumoniae serotype 14
Feng Ding, Petrus Tang, Mei-Hua Hsu, Peng Cui, Songnian Hu, Jun Yu, Cheng-Hsun Chiu BMC Genomics 2009, 10:158 (13 April 2009)
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Reconstructing the phylogeny of 21 completely sequenced arthropod species based on their motor proteins
Florian Odronitz, Sebastian Becker, Martin Kollmar BMC Genomics 2009, 10:173 (21 April 2009)
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Disorders of sex development expose transcriptional autonomy of genetic sex and androgen-programmed hormonal sex in human blood leukocytes
Paul-Martin Holterhus, Jan-Hendrik Bebermeier, Ralf Werner, Janos Demeter, Annette Richter-Unruh, Gunnar Cario, Mahesh Appari, Reiner Siebert, Felix Riepe, James D Brooks, Olaf Hiort BMC Genomics 2009, 10:292 (1 July 2009)
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Comparative genomics of the emerging human pathogen Photorhabdus asymbiotica with the insect pathogen Photorhabdus luminescens
Paul Wilkinson, Nicholas R Waterfield, Lisa Crossman, Craig Corton, Maria Sanchez-Contreras, Isabella Vlisidou, Andrew Barron, Alexandra Bignell, Louise Clark, Douglas Ormond, Matthew Mayho, Nathalie Bason, Frances Smith, Mark Simmonds, Carol Churcher, David Harris, Nicholas R Thompson, Michael Quail, Julian Parkhill, Richard H ffrench-Constant BMC Genomics 2009, 10:302 (7 July 2009)
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| PubMed | Cited on BioMed Central
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Computational identification of hepatitis C virus associated microRNA-mRNA regulatory modules in human livers
Xinxia Peng, Yu Li, Kathie-Anne Walters, Elizabeth R Rosenzweig, Sharon L Lederer, Lauri D Aicher, Sean Proll, Michael G Katze BMC Genomics 2009, 10:373 (11 August 2009)
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Hepatic gene expression profiling reveals protective responses in Atlantic salmon vaccinated against furunculosis
Stanko Škugor, Sven Jørgensen, Bjarne Gjerde, Aleksei Krasnov BMC Genomics 2009, 10:503 (30 October 2009)
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Systems genetics analysis of body weight and energy metabolism traits in Drosophila melanogaster
Patricia Jumbo-Lucioni, Julien F Ayroles, Michelle Chambers, Katherine W Jordan, Jeff Leips, Trudy FC Mackay, Maria De Luca BMC Genomics 2010, 11:297 (11 May 2010)
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Whole genome sequencing of Saccharomyces cerevisiae: from genotype to phenotype for improved metabolic engineering applications
José Otero, Wanwipa Vongsangnak, Mohammad A Asadollahi, Roberto Olivares-Hernandes, Jérôme Maury, Laurent Farinelli, Loïc Barlocher, Magne Østerås, Michel Schalk, Anthony Clark, Jens Nielsen BMC Genomics 2010, 11:723 (22 December 2010)
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Transcriptomic assessment of resistance to effects of an aryl hydrocarbon receptor (AHR) agonist in embryos of Atlantic killifish (Fundulus heteroclitus) from a marine Superfund site
Marjorie F Oleksiak, Sibel I Karchner, Matthew J Jenny, Diana G Franks, David B Mark Welch, Mark E Hahn BMC Genomics 2011, 12:263 (24 May 2011)
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Editor’s summary
Atlantic killifish from heavily polluted New Bedford Harbor show resistance to polychlorinated biphenyls (PCBs) thanks to a gene regulatory defect that affects many pollution responsive genes, rather than mutations in single genes.
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15.
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Genomic fluidity: an integrative view of gene diversity within microbial populations
Andrey O Kislyuk, Bart Haegeman, Nicholas H Bergman, Joshua S Weitz BMC Genomics 2011, 12:32 (13 January 2011)
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Comparative genomics and transcriptomics of lineages I, II, and III strains of Listeria monocytogenes
Torsten Hain, Rohit Ghai, André Billion, Carsten Kuenne, Christiane Steinweg, Benjamin Izar, Walid Mohamed, Mobarak Mraheil, Eugen Domann, Silke Schaffrath, Uwe Kärst, Alexander Goesmann, Sebastian Oehm, Alfred Pühler, Rainer Merkl, Sonja Vorwerk, Philippe Glaser, Patricia Garrido, Christophe Rusniok, Carmen Buchrieser, Werner Goebel, Trinad Chakraborty BMC Genomics 2012, 13:144 (24 April 2012)
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| PubMed | Cited on BioMed Central
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Distribution of nitrogen fixation and nitrogenase-like sequences amongst microbial genomes
Patricia C Dos Santos, Zhong Fang, Steven W Mason, João C Setubal, Ray Dixon BMC Genomics 2012, 13:162 (3 May 2012)
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18.
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Sequencing and comparative genomic analysis of 1227 Felis catus cDNA sequences enriched for developmental, clinical and nutritional phenotypes
Kristopher J Irizarry, Sukhaswami B Malladi, Xiangming Gao, Katherine Mitsouras, Lynda Melendez, Patricia A Burris, Jeffrey A Brockman, Samer W Al-Murrani BMC Genomics 2012, 13:31 (18 January 2012)
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Comparative genomic analysis of human infective Trypanosoma cruzi lineages with the bat-restricted subspecies T. cruzi marinkellei
Oscar Franzén, Carlos Talavera-López, Stephen Ochaya, Claire E Butler, Louisa A Messenger, Michael D Lewis, Martin S Llewellyn, Cornelis J Marinkelle, Kevin M Tyler, Michael A Miles, Björn Andersson BMC Genomics 2012, 13:531 (5 October 2012)
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20.
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Strategies and utility of imputed SNP genotypes for genomic analysis in dairy cattle
Mehar S Khatkar, Gerhard Moser, Ben J Hayes, Herman W Raadsma BMC Genomics 2012, 13:538 (8 October 2012)
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21.
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Population and sex differences in Drosophila melanogaster brain gene expression
Ana Catalán, Stephan Hutter, John Parsch BMC Genomics 2012, 13:654 (21 November 2012)
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22.
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An S/T-Q cluster domain census unveils new putative targets under Tel1/Mec1 control
Hannah C Cheung, F Anthony San Lucas, Stephanie Hicks, Kyle Chang, Alison A Bertuch, Albert Ribes-Zamora BMC Genomics 2012, 13:664 (23 November 2012)
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23.
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Identification of transcription factors potential related to brown planthopper resistance in rice via microarray expression profiling
Yubing Wang, Huimin Guo, Haichao Li, Hao Zhang, Xuexia Miao BMC Genomics 2012, 13:687 (10 December 2012)
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24.
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A novel method to discover fluoroquinolone antibiotic resistance (qnr) genes in fragmented nucleotide sequences
Fredrik Boulund, Anna Johnning, Mariana Buongermino Pereira, DG Joakim Larsson, Erik Kristiansson BMC Genomics 2012, 13:695 (11 December 2012)
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25.
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Single nucleotide polymorphism discovery in cutthroat trout subspecies using genome reduction, barcoding, and 454 pyro-sequencing
Derek D Houston, David B Elzinga, Peter J Maughan, Scott M Smith, John SK Kauwe, R Paul Evans, Ryan B Stinger, Dennis K Shiozawa BMC Genomics 2012, 13:724 (23 December 2012)
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