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1.
6417 Accesses
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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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2.
3986 Accesses
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Draft genome sequence of the rubber tree Hevea brasiliensis
Ahmad Yamin Abdul Rahman, Abhilash O Usharraj, Biswapriya B Misra, Gincy P Thottathil, Kandakumar Jayasekaran, Yun Feng, Shaobin Hou, Su Yean Ong, Fui Ling Ng, Ling Sze Lee, Hock Siew Tan, Muhd Khairul Luqman Muhd Sakaff, Beng Soon Teh, Bee Khoo, Siti Suriawati Badai, Nurohaida Ab Aziz, Anton Yuryev, Bjarne Knudsen, Alexandre Dionne-Laporte, Nokuthula P Mchunu, Qingyi Yu, Brennick J Langston, Tracey Allen K Freitas, Aaron G Young, Rui Chen, Lei Wang, Nazalan Najimudin, Jennifer A Saito, Maqsudul Alam BMC Genomics 2013, 14:75 (2 February 2013)
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Editor’s summary
The draft genome of the rubber tree Hevea brasiliensis is almost 80% repetitive DNA with 12.7% of genes models identified being unique to this species, including key rubber biosynthesis and disease resistance genes
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3.
3417 Accesses
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Insights into the evolution of Darwin’s finches from comparative analysis of the Geospiza magnirostris genome sequence
Chris M Rands, Aaron Darling, Matthew Fujita, Lesheng Kong, Matthew T Webster, Céline Clabaut, Richard D Emes, Andreas Heger, Stephen Meader, Michael Brent Hawkins, Michael B Eisen, Clotilde Teiling, Jason Affourtit, Benjamin Boese, Peter R Grant, Barbara Rosemary Grant, Jonathan A Eisen, Arhat Abzhanov, Chris P Ponting BMC Genomics 2013, 14:95 (12 February 2013)
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Editor’s summary
204 years after Charles Darwin’s birth, sequencing of the genome of the Darwin’s Finch Geospiza magnirostris reveals over 13,000 predicted genes, of which two under positive selection may have contributed to beak morphology evolution, which so interested Darwin.
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4.
2568 Accesses
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Genome-wide identification, characterization, and expression analysis of lineage-specific genes within zebrafish
Liandong Yang, Ming Zou, Beide Fu, Shunping He BMC Genomics 2013, 14:65 (31 January 2013)
Abstract | Provisional PDF
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5.
2537 Accesses
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Genotyping 1000 yeast strains by next-generation sequencing
Stefan Wilkening, Manu M Tekkedil, Gen Lin, Emilie S Fritsch, Wu Wei, Julien Gagneur, David W Lazinski, Andrew Camilli, Lars M Steinmetz BMC Genomics 2013, 14:90 (9 February 2013)
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6.
2142 Accesses
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Comparative genomic analyses of Mycoplasma hyopneumoniae pathogenic 168 strain and its high-passaged attenuated strain
Wei Liu, Shaobo Xiao, Mao Li, Shaohua Guo, Sha Li, Rui Luo, Zhixin Feng, Bin Li, Zhemin Zhou, Guoqing Shao, Huanchun Chen, Liurong Fang BMC Genomics 2013, 14:80 (5 February 2013)
Abstract | Provisional PDF
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7.
2124 Accesses
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An R2R3 MYB transcription factor determines red petal colour in an Actinidia (kiwifruit) hybrid population
Lena G Fraser, Alan G Seal, Mirco Montefiori, Tony K McGhie, Gianna K Tsang, Paul M Datson, Elena Hilario, Hinga E Marsh, Juanita K Dunn, Roger P Hellens, Kevin M Davies, Mark A McNeilage, H Nihal Silva, Andrew C Allan BMC Genomics 2013, 14:28 (16 January 2013)
Abstract | Provisional PDF
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8.
2056 Accesses
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Transcriptome analysis of rice root heterosis by RNA-Seq
Rongrong Zhai, Yue Feng, Huimin Wang, Xiaodeng Zhan, Xihong Shen, Weiming Wu, Yingxin Zhang, Daibo Chen, Gaoxing Dai, Zhanlie Yang, Liyong Cao, Shihua Cheng BMC Genomics 2013, 14:19 (16 January 2013)
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9.
1931 Accesses
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Genome-wide analysis of histone modifiers in tomato: gaining an insight into their developmental roles
Riccardo Aiese Cigliano, Walter Sanseverino, Gaetana Cremona, Maria R Ercolano, Clara Conicella, Federica M Consiglio BMC Genomics 2013, 14:57 (28 January 2013)
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10.
1815 Accesses
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Eukaryotic genomes may exhibit up to 10 generic classes of gene promoters
Paul Gagniuc, Constantin Ionescu-Tirgoviste BMC Genomics 2012, 13:512 (28 September 2012)
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11.
1814 Accesses
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LEA (Late Embryogenesis Abundant) proteins and their encoding genes in Arabidopsis thaliana
Michaela Hundertmark, Dirk K Hincha BMC Genomics 2008, 9:118 (4 March 2008)
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| PubMed | Cited on BioMed Central
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12.
1791 Accesses
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Comparison of metagenomic samples using sequence signatures
Bai Jiang, Kai Song, Jie Ren, Minghua Deng, Fengzhu Sun, Xuegong Zhang BMC Genomics 2012, 13:730 (27 December 2012)
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13.
1690 Accesses
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Transcriptome of the dead: characterisation of immune genes and marker development from necropsy samples in a free-ranging marine mammal
Joseph I Hoffman, Michael AS Thorne, Philip N Trathan, Jaume Forcada BMC Genomics 2013, 14:52 (24 January 2013)
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14.
1669 Accesses
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Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction
Miguel Redondo-Nieto, Matthieu Barret, John Morrissey, Kieran Germaine, Francisco Martínez-Granero, Emma Barahona, Ana Navazo, María Sánchez-Contreras, Jennifer A Moynihan, Candela Muriel, David Dowling, Fergal O’Gara, Marta Martín, Rafael Rivilla BMC Genomics 2013, 14:54 (25 January 2013)
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15.
1635 Accesses
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Identification and characterization of microRNAs in Phaseolus vulgaris by high-throughput sequencing
Pablo Peláez, Minerva S Trejo, Luis P Iñiguez, Georgina Estrada-Navarrete, Alejandra A Covarrubias, José L Reyes, Federico Sanchez BMC Genomics 2012, 13:83 (6 March 2012)
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16.
1631 Accesses
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Combining proteomics and transcriptome sequencing to identify active plant-cell-wall-degrading enzymes in a leaf beetle
Roy Kirsch, Natalie Wielsch, Heiko Vogel, Aleš Svatoš, David G Heckel, Yannick Pauchet BMC Genomics 2012, 13:587 (1 November 2012)
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17.
1633 Accesses
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Transcriptomic profiling of the salt-stress response in the wild recretohalophyte Reaumuria trigyna
Zhen-hua Dang, Lin-lin Zheng, Jia Wang, Zhe Gao, Shu-biao Wu, Zhi Qi, Ying-chun Wang BMC Genomics 2013, 14:29 (16 January 2013)
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18.
1628 Accesses
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Small RNA pyrosequencing in the protozoan parasite Entamoeba histolytica reveals strain-specific small RNAs that target virulence genes
Hanbang Zhang, Gretchen M Ehrenkaufer, Neil Hall, Upinder Singh BMC Genomics 2013, 14:53 (25 January 2013)
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19.
1592 Accesses
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Powdery mildew fungal effector candidates share N-terminal Y/F/WxC-motif
Dale Godfrey, Henrik Böhlenius, Carsten Pedersen, Ziguo Zhang, Jeppe Emmersen, Hans Thordal-Christensen BMC Genomics 2010, 11:317 (20 May 2010)
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20.
1579 Accesses
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Whole transcriptome analysis of the silicon response of the diatom Thalassiosira pseudonana
Roshan Shrestha, Benoit Tesson, Trina Norden-Krichmar, Stephen Federowicz, Mark Hildebrand, Andrew E Allen BMC Genomics 2012, 13:499 (20 September 2012)
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21.
1570 Accesses
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Double restriction-enzyme digestion improves the coverage and accuracy of genome-wide CpG methylation profiling by reduced representation bisulfite sequencing
Junwen Wang, Yudong Xia, Lili Li, Desheng Gong, Yu Yao, Huijuan Luo, Hanlin Lu, Na Yi, Honglong Wu, Xiuqing Zhang, Qian Tao, Fei Gao BMC Genomics 2013, 14:11 (16 January 2013)
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22.
1563 Accesses
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Analysis of the peroxisome proliferator-activated receptor-β/δ (PPARβ/δ) cistrome reveals novel co-regulatory role of ATF4
Combiz Khozoie, Michael G Borland, Bokai Zhu, Songjoon Baek, Sam John, Gordon L Hager, Yatrik M Shah, Frank J Gonzalez, Jeffrey M Peters BMC Genomics 2012, 13:665 (24 November 2012)
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23.
1538 Accesses
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Comparative genomic and transcriptomic analysis revealed genetic characteristics related to solvent formation and xylose utilization in Clostridium acetobutylicum EA 2018
Shiyuan Hu, Huajun Zheng, Yang Gu, Jingbo Zhao, Weiwen Zhang, Yunliu Yang, Shengyue Wang, Guoping Zhao, Sheng Yang, Weihong Jiang BMC Genomics 2011, 12:93 (2 February 2011)
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24.
1526 Accesses
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De novo sequencing and analysis of root transcriptome using 454 pyrosequencing to discover putative genes associated with drought tolerance in Ammopiptanthus mongolicus
Yijun Zhou, Fei Gao, Ran Liu, Jinchao Feng, Hongjie Li BMC Genomics 2012, 13:266 (21 June 2012)
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25.
1527 Accesses
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Centering, scaling, and transformations: improving the biological information content of metabolomics data
Robert A van den Berg, Huub CJ Hoefsloot, Johan A Westerhuis, Age K Smilde, Mariët J van der Werf BMC Genomics 2006, 7:142 (8 June 2006)
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