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		Research article Balancing noise and plasticity in eukaryotic gene expression Djordje Bajić, Juan F Poyatos BMC Genomics 2012, 13:343 (27 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Genome-wide identification of significant aberrations in cancer genome Xiguo Yuan, Guoqiang Yu, Xuchu Hou, Ie-Ming Shih, Robert Clarke, Junying Zhang, Eric P Hoffman, Roger R Wang, Zhen Zhang, Yue Wang BMC Genomics 2012, 13:342 (27 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article 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) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 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.
		Research article How accurate can genetic predictions be? Jonathan M Dreyfuss, Daniel Levner, James E Galagan, George M Church, Marco F Ramoni BMC Genomics 2012, 13:340 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| 1 comment
		Research article DNA repair and crossing over favor similar chromosome regions as discovered in radiation hybrid of Triticum Ajay Kumar, Filippo M Bassi, Etienne Paux, Omar Al-Azzam, Monika de Jimenez, Anne M Denton, Yong Q Gu, Eric Huttner, Andrzej Kilian, Sachin Kumar, Aakash Goyal, Muhammad J Iqbal, Vijay K Tiwari, Munevver Dogramaci, Harindra S Balyan, Harcharan S Dhaliwal, Pushpendra K Gupta, Gursharn S Randhawa, Catherine Feuillet, Wojciech P Pawlowski, Shahryar F Kianian BMC Genomics 2012, 13:339 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Software Short read sequence typing (SRST): multi-locus sequence types from short reads Michael Inouye, Thomas C Conway, Justin Zobel, Kathryn E Holt BMC Genomics 2012, 13:338 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Genomic and transcriptomic insights into the thermo-regulated biosynthesis of validamycin in Streptomyces hygroscopicus 5008 Hang Wu, Shuang Qu, Chenyang Lu, Huajun Zheng, Xiufen Zhou, Linquan Bai, Zixin Deng BMC Genomics 2012, 13:337 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| 1 comment
		Research article Clostridium thermocellum ATCC27405 transcriptomic, metabolomic and proteomic profiles after ethanol stress Shihui Yang, Richard J Giannone, Lezlee Dice, Zamin K Yang, Nancy L Engle, Timothy J Tschaplinski, Robert L Hettich, Steven D Brown BMC Genomics 2012, 13:336 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article A microarray analysis of gnotobiotic mice indicating that microbial exposure during the neonatal period plays an essential role in immune system development Masahiro Yamamoto, Rui Yamaguchi, Kaori Munakata, Kiyoe Takashima, Mitsue Nishiyama, Kyoji Hioki, Yasuyuki Ohnishi, Masao Nagasaki, Seiya Imoto, Satoru Miyano, Atsushi Ishige, Kenji Watanabe BMC Genomics 2012, 13:335 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Remodeling of central metabolism in invasive breast cancer compared to normal breast tissue – a GC-TOFMS based metabolomics study Jan Budczies, Carsten Denkert, Berit M Müller, Scarlet F Brockmöller, Frederick Klauschen, Balazs Györffy, Manfred Dietel, Christiane Richter-Ehrenstein, Ulrike Marten, Reza M Salek, Julian L Griffin, Mika Hilvo, Matej Orešič, Gert Wohlgemuth, Oliver Fiehn BMC Genomics 2012, 13:334 (23 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article A survey of putative secreted and transmembrane proteins encoded in the C. elegans genome Jinkyo Suh, Harald Hutter BMC Genomics 2012, 13:333 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article A microRNA activity map of human mesenchymal tumors: connections to oncogenic pathways; an integrative transcriptomic study Elena Fountzilas, Andrew D Kelly, Antonio R Perez-Atayde, Jeffrey Goldsmith, Panagiotis A Konstantinopoulos, Nancy Francoeur, Mick Correll, Renee Rubio, Lan Hu, Mark C Gebhardt, John Quackenbush, Dimitrios Spentzos BMC Genomics 2012, 13:332 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Genomic and proteomic characterization of SuMu, a Mu-like bacteriophage infecting Haemophilus parasuis Emilie S Zehr, Louisa B Tabatabai, Darrell O Bayles BMC Genomics 2012, 13:331 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Differential gene expression profiling of porcine epithelial cells infected with three enterotoxigenic Escherichia coli strains Chuanli Zhou, Zhengzhu Liu, Jicai Jiang, Ying Yu, Qin Zhang BMC Genomics 2012, 13:330 (23 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Characterization of the small RNA component of leaves and fruits from four different cucurbit species Guru Jagadeeswaran, Padma Nimmakayala, Yun Zheng, Kanchana Gowdu, Umesh K Reddy, Ramanjulu Sunkar BMC Genomics 2012, 13:329 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Burkholderia pseudomallei transcriptional adaptation in macrophages Sylvia Chieng, Laura Carreto, Sheila Nathan BMC Genomics 2012, 13:328 (23 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Comparative metagenomics of three Dehalococcoides-containing enrichment cultures: the role of the non-dechlorinating community Laura A Hug, Robert G Beiko, Annette R Rowe, Ruth E Richardson, Elizabeth A Edwards BMC Genomics 2012, 13:327 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Genome-wide CNV analysis replicates the association between GSTM1 deletion and bladder cancer: a support for using continuous measurement from SNP-array data Gaëlle Marenne, Francisco X Real, Nathaniel Rothman, Benjamin Rodríguez-Santiago, Luis Pérez-Jurado, Manolis Kogevinas, Montse García-Closas, Debra T Silverman, Stephen J Chanock, Emmanuelle Génin, Núria Malats BMC Genomics 2012, 13:326 (20 July 2012) Abstract \| Full text \| PDF \| PubMed
		Software atBioNet– an integrated network analysis tool for genomics and biomarker discovery Yijun Ding, Minjun Chen, Zhichao Liu, Don Ding, Yanbin Ye, Min Zhang, Reagan Kelly, Li Guo, Zhenqiang Su, Stephen C Harris, Feng Qian, Weigong Ge, Hong Fang, Xiaowei Xu, Weida Tong BMC Genomics 2012, 13:325 (20 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Composition and organization of active centromere sequences in complex genomes Karen E Hayden, Huntington F Willard BMC Genomics 2012, 13:324 (20 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Brain transcriptome variation among behaviorally distinct strains of zebrafish (Danio rerio) Robert E Drew, Matthew L Settles, Erin J Churchill, Shayna M Williams, Soniya Balli, Barrie D Robison BMC Genomics 2012, 13:323 (20 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Chips and tags suggest plant-environment interactions differ for two alpine Pachycladon species Claudia Voelckel, Nicole Gruenheit, Patrick Biggs, Oliver Deusch, Peter Lockhart BMC Genomics 2012, 13:322 (19 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Degradation of different pectins by fungi: correlations and contrasts between the pectinolytic enzyme sets identified in genomes and the growth on pectins of different origin Isabelle Benoit, Pedro M Coutinho, Henk A Schols, Jan P Gerlach, Bernard Henrissat, Ronald P de Vries BMC Genomics 2012, 13:321 (19 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Differential microRNA response to a high-cholesterol, high-fat diet in livers of low and high LDL-C baboons Genesio M Karere, Jeremy P Glenn, John L VandeBerg, Laura A Cox BMC Genomics 2012, 13:320 (18 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article RNA-seq liver transcriptome analysis reveals an activated MHC-I pathway and an inhibited MHC-II pathway at the early stage of vaccine immunization in zebrafish Dahai Yang, Qin Liu, Minjun Yang, Haizhen Wu, Qiyao Wang, Jingfan Xiao, Yuanxing Zhang BMC Genomics 2012, 13:319 (17 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Application of next-generation sequencing for rapid marker development in molecular plant breeding: a case study on anthracnose disease resistance in Lupinus angustifolius L. Huaan Yang, Ye Tao, Zequn Zheng, Chengdao Li, Mark W Sweetingham, John G Howieson BMC Genomics 2012, 13:318 (17 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article A comparative transcriptomic, fluxomic and metabolomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation Magalie Celton, Isabelle Sanchez, Anne Goelzer, Vincent Fromion, Carole Camarasa, Sylvie Dequin BMC Genomics 2012, 13:317 (17 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Development and validation of genic-SSR markers in sesame by RNA-seq Haiyang Zhang, Libin Wei, Hongmei Miao, Tide Zhang, Cuiying Wang BMC Genomics 2012, 13:316 (16 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Deep ancestry of mammalian X chromosome revealed by comparison with the basal tetrapod Xenopus tropicalis Jaroslav Mácha, Radka Teichmanová, Amy K Sater, Dan E Wells, Tereza Tlapáková, Lyle B Zimmerman, Vladimír Krylov BMC Genomics 2012, 13:315 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Transposable elements in phytopathogenic Verticillium spp.: insights into genome evolution and inter- and intra-specific diversification Stefan G Amyotte, Xiaoping Tan, Kayla Pennerman, Maria del Mar Jimenez-Gasco, Steven J Klosterman, Li-Jun Ma, Katherine F Dobinson, Paola Veronese BMC Genomics 2012, 13:314 (16 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Mapping the polysaccharide degradation potential of Aspergillus niger Mikael R Andersen, Malene Giese, Ronald P, Jens Nielsen BMC Genomics 2012, 13:313 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article The venom-gland transcriptome of the eastern diamondback rattlesnake (Crotalus adamanteus) Darin R Rokyta, Alan R Lemmon, Mark J Margres, Karalyn Aronow BMC Genomics 2012, 13:312 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Comparative genomics of Shiga toxin encoding bacteriophages Darren L Smith, David J Rooks, Paul CM Fogg, Alistair C Darby, Nick R Thomson, Alan J McCarthy, Heather E Allison BMC Genomics 2012, 13:311 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Identification of soybean seed developmental stage-specific and tissue-specific miRNA targets by degradome sequencing Md Shamimuzzaman, Lila Vodkin BMC Genomics 2012, 13:310 (16 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Multifunctionality and diversity of GDSL esterase/lipase gene family in rice (Oryza sativa L. japonica) genome: new insights from bioinformatics analysis Hanna Chepyshko, Chia-Ping Lai, Li-Ming Huang, Jyung-Hurng Liu, Jei-Fu Shaw BMC Genomics 2012, 13:309 (15 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article An unbiased approach to identify genes involved in development in a turtle with temperature-dependent sex determination Jena L Chojnowski, Edward L Braun BMC Genomics 2012, 13:308 (15 July 2012) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Two novel candidate genes show differential mRNA accumulation at the male-forming and female-forming temperatures in embryos of the Red-eared slider turtle, which has temperature sensitive sex determination.
		Research article Cysteine peptidases and their inhibitors in Tetranychus urticae: a comparative genomic approach María Santamaría, Pedro Hernández-Crespo, Félix Ortego, Vojislava Grbic, Miodrag Grbic, Isabel Diaz, Manuel Martinez BMC Genomics 2012, 13:307 (11 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Let-7b regulates the expression of the growth hormone receptor gene in deletion-type dwarf chickens Shumao Lin, Hongmei Li, Heping Mu, Wen Luo, Ying Li, Xinzheng Jia, Sibing Wang, Xiaolu Jia, Qinghua Nie, Yugu Li, Xiquan Zhang BMC Genomics 2012, 13:306 (10 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article De novo transcriptome sequencing in a songbird, the dark-eyed junco (Junco hyemalis): genomic tools for an ecological model system Mark P Peterson, Danielle J Whittaker, Shruthi Ambreth, Suhas Sureshchandra, Aaron Buechlein, Ram Podicheti, Jeong-Hyeon Choi, Zhao Lai, Keithanne Mockatis, John Colbourne, Haixu Tang, Ellen D Ketterson BMC Genomics 2012, 13:305 (9 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Technical and biological variance structure in mRNA-Seq data: life in the real world Ann L Oberg, Brian M Bot, Diane E Grill, Gregory A Poland, Terry M Therneau BMC Genomics 2012, 13:304 (7 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Database Oomycete transcriptomics database: A resource for oomycete transcriptomes Sucheta Tripathy, Tejal Deo, Brett M Tyler BMC Genomics 2012, 13:303 (6 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Duplicate gene evolution, homoeologous recombination, and transcriptome characterization in allopolyploid cotton Lex E Flagel, Jonathan F Wendel, Joshua A Udall BMC Genomics 2012, 13:302 (6 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Finding combinatorial histone code by semi-supervised biclustering Li Teng, Kai Tan BMC Genomics 2012, 13:301 (3 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression Xin Li, Jingde Zhu, Fengyi Hu, Song Ge, Mingzhi Ye, Hui Xiang, Guojie Zhang, Xiaoming Zheng, Hongyu Zhang, Shilai Zhang, Qiong Li, Ruibang Luo, Chang Yu, Jian Yu, Jingfeng Sun, Xiaoyu Zou, Xiaofeng Cao, Xianfa Xie, Jun Wang, Wen Wang BMC Genomics 2012, 13:300 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Software PePPER: a webserver for prediction of prokaryote promoter elements and regulons Anne de Jong, Hilco Pietersma, Martijn Cordes, Oscar P Kuipers, Jan Kok BMC Genomics 2012, 13:299 (2 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Distinct and overlapping gene regulatory networks in BMP- and HDAC-controlled cell fate determination in the embryonic forebrain Catharina Scholl, Kathrin Weiβmüller, Pavlo Holenya, Maya Shaked-Rabi, Kerry L Tucker, Stefan Wölfl BMC Genomics 2012, 13:298 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Evolutionary analysis of the ENTH/ANTH/VHS protein superfamily reveals a coevolution between membrane trafficking and metabolism Johan-Owen De Craene, Raymond Ripp, Odile Lecompte, Julie D Thompson, Olivier Poch, Sylvie Friant BMC Genomics 2012, 13:297 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Software ReadqPCR and NormqPCR: R packages for the reading, quality checking and normalisation of RT-qPCR quantification cycle (Cq) data James R Perkins, John M Dawes, Steve B McMahon, David LH Bennett, Christine Orengo, Matthias Kohl BMC Genomics 2012, 13:296 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Transcriptional profile of Taxus chinensis cells in response to methyl jasmonate Shu-tao Li, Peng Zhang, Meng Zhang, Chun-hua Fu, Chun-fang Zhao, Yan-shan Dong, An-yuan Guo, Long-jiang Yu BMC Genomics 2012, 13:295 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Identification of genes specifically or preferentially expressed in maize silk reveals similarity and diversity in transcript abundance of different dry stigmas Xiao Xu, Hao Chen, Ya Sang, Fang Wang, Jun Ma, Xin-Qi Gao, Xian Zhang BMC Genomics 2012, 13:294 (2 July 2012) Abstract \| Full text \| PDF \| PubMed

	All
		Research article Balancing noise and plasticity in eukaryotic gene expression Djordje Bajić, Juan F Poyatos BMC Genomics 2012, 13:343 (27 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Genome-wide identification of significant aberrations in cancer genome Xiguo Yuan, Guoqiang Yu, Xuchu Hou, Ie-Ming Shih, Robert Clarke, Junying Zhang, Eric P Hoffman, Roger R Wang, Zhen Zhang, Yue Wang BMC Genomics 2012, 13:342 (27 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article 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) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 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.
		Research article How accurate can genetic predictions be? Jonathan M Dreyfuss, Daniel Levner, James E Galagan, George M Church, Marco F Ramoni BMC Genomics 2012, 13:340 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| 1 comment
		Research article DNA repair and crossing over favor similar chromosome regions as discovered in radiation hybrid of Triticum Ajay Kumar, Filippo M Bassi, Etienne Paux, Omar Al-Azzam, Monika de Jimenez, Anne M Denton, Yong Q Gu, Eric Huttner, Andrzej Kilian, Sachin Kumar, Aakash Goyal, Muhammad J Iqbal, Vijay K Tiwari, Munevver Dogramaci, Harindra S Balyan, Harcharan S Dhaliwal, Pushpendra K Gupta, Gursharn S Randhawa, Catherine Feuillet, Wojciech P Pawlowski, Shahryar F Kianian BMC Genomics 2012, 13:339 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Software Short read sequence typing (SRST): multi-locus sequence types from short reads Michael Inouye, Thomas C Conway, Justin Zobel, Kathryn E Holt BMC Genomics 2012, 13:338 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Genomic and transcriptomic insights into the thermo-regulated biosynthesis of validamycin in Streptomyces hygroscopicus 5008 Hang Wu, Shuang Qu, Chenyang Lu, Huajun Zheng, Xiufen Zhou, Linquan Bai, Zixin Deng BMC Genomics 2012, 13:337 (24 July 2012) Abstract \| Full text \| PDF \| PubMed \| 1 comment
		Research article Clostridium thermocellum ATCC27405 transcriptomic, metabolomic and proteomic profiles after ethanol stress Shihui Yang, Richard J Giannone, Lezlee Dice, Zamin K Yang, Nancy L Engle, Timothy J Tschaplinski, Robert L Hettich, Steven D Brown BMC Genomics 2012, 13:336 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article A microarray analysis of gnotobiotic mice indicating that microbial exposure during the neonatal period plays an essential role in immune system development Masahiro Yamamoto, Rui Yamaguchi, Kaori Munakata, Kiyoe Takashima, Mitsue Nishiyama, Kyoji Hioki, Yasuyuki Ohnishi, Masao Nagasaki, Seiya Imoto, Satoru Miyano, Atsushi Ishige, Kenji Watanabe BMC Genomics 2012, 13:335 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Remodeling of central metabolism in invasive breast cancer compared to normal breast tissue – a GC-TOFMS based metabolomics study Jan Budczies, Carsten Denkert, Berit M Müller, Scarlet F Brockmöller, Frederick Klauschen, Balazs Györffy, Manfred Dietel, Christiane Richter-Ehrenstein, Ulrike Marten, Reza M Salek, Julian L Griffin, Mika Hilvo, Matej Orešič, Gert Wohlgemuth, Oliver Fiehn BMC Genomics 2012, 13:334 (23 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article A survey of putative secreted and transmembrane proteins encoded in the C. elegans genome Jinkyo Suh, Harald Hutter BMC Genomics 2012, 13:333 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article A microRNA activity map of human mesenchymal tumors: connections to oncogenic pathways; an integrative transcriptomic study Elena Fountzilas, Andrew D Kelly, Antonio R Perez-Atayde, Jeffrey Goldsmith, Panagiotis A Konstantinopoulos, Nancy Francoeur, Mick Correll, Renee Rubio, Lan Hu, Mark C Gebhardt, John Quackenbush, Dimitrios Spentzos BMC Genomics 2012, 13:332 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Genomic and proteomic characterization of SuMu, a Mu-like bacteriophage infecting Haemophilus parasuis Emilie S Zehr, Louisa B Tabatabai, Darrell O Bayles BMC Genomics 2012, 13:331 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Differential gene expression profiling of porcine epithelial cells infected with three enterotoxigenic Escherichia coli strains Chuanli Zhou, Zhengzhu Liu, Jicai Jiang, Ying Yu, Qin Zhang BMC Genomics 2012, 13:330 (23 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Characterization of the small RNA component of leaves and fruits from four different cucurbit species Guru Jagadeeswaran, Padma Nimmakayala, Yun Zheng, Kanchana Gowdu, Umesh K Reddy, Ramanjulu Sunkar BMC Genomics 2012, 13:329 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Burkholderia pseudomallei transcriptional adaptation in macrophages Sylvia Chieng, Laura Carreto, Sheila Nathan BMC Genomics 2012, 13:328 (23 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Comparative metagenomics of three Dehalococcoides-containing enrichment cultures: the role of the non-dechlorinating community Laura A Hug, Robert G Beiko, Annette R Rowe, Ruth E Richardson, Elizabeth A Edwards BMC Genomics 2012, 13:327 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Genome-wide CNV analysis replicates the association between GSTM1 deletion and bladder cancer: a support for using continuous measurement from SNP-array data Gaëlle Marenne, Francisco X Real, Nathaniel Rothman, Benjamin Rodríguez-Santiago, Luis Pérez-Jurado, Manolis Kogevinas, Montse García-Closas, Debra T Silverman, Stephen J Chanock, Emmanuelle Génin, Núria Malats BMC Genomics 2012, 13:326 (20 July 2012) Abstract \| Full text \| PDF \| PubMed
		Software atBioNet– an integrated network analysis tool for genomics and biomarker discovery Yijun Ding, Minjun Chen, Zhichao Liu, Don Ding, Yanbin Ye, Min Zhang, Reagan Kelly, Li Guo, Zhenqiang Su, Stephen C Harris, Feng Qian, Weigong Ge, Hong Fang, Xiaowei Xu, Weida Tong BMC Genomics 2012, 13:325 (20 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Composition and organization of active centromere sequences in complex genomes Karen E Hayden, Huntington F Willard BMC Genomics 2012, 13:324 (20 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Brain transcriptome variation among behaviorally distinct strains of zebrafish (Danio rerio) Robert E Drew, Matthew L Settles, Erin J Churchill, Shayna M Williams, Soniya Balli, Barrie D Robison BMC Genomics 2012, 13:323 (20 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Chips and tags suggest plant-environment interactions differ for two alpine Pachycladon species Claudia Voelckel, Nicole Gruenheit, Patrick Biggs, Oliver Deusch, Peter Lockhart BMC Genomics 2012, 13:322 (19 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Degradation of different pectins by fungi: correlations and contrasts between the pectinolytic enzyme sets identified in genomes and the growth on pectins of different origin Isabelle Benoit, Pedro M Coutinho, Henk A Schols, Jan P Gerlach, Bernard Henrissat, Ronald P de Vries BMC Genomics 2012, 13:321 (19 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Differential microRNA response to a high-cholesterol, high-fat diet in livers of low and high LDL-C baboons Genesio M Karere, Jeremy P Glenn, John L VandeBerg, Laura A Cox BMC Genomics 2012, 13:320 (18 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article RNA-seq liver transcriptome analysis reveals an activated MHC-I pathway and an inhibited MHC-II pathway at the early stage of vaccine immunization in zebrafish Dahai Yang, Qin Liu, Minjun Yang, Haizhen Wu, Qiyao Wang, Jingfan Xiao, Yuanxing Zhang BMC Genomics 2012, 13:319 (17 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Application of next-generation sequencing for rapid marker development in molecular plant breeding: a case study on anthracnose disease resistance in Lupinus angustifolius L. Huaan Yang, Ye Tao, Zequn Zheng, Chengdao Li, Mark W Sweetingham, John G Howieson BMC Genomics 2012, 13:318 (17 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article A comparative transcriptomic, fluxomic and metabolomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation Magalie Celton, Isabelle Sanchez, Anne Goelzer, Vincent Fromion, Carole Camarasa, Sylvie Dequin BMC Genomics 2012, 13:317 (17 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Development and validation of genic-SSR markers in sesame by RNA-seq Haiyang Zhang, Libin Wei, Hongmei Miao, Tide Zhang, Cuiying Wang BMC Genomics 2012, 13:316 (16 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Deep ancestry of mammalian X chromosome revealed by comparison with the basal tetrapod Xenopus tropicalis Jaroslav Mácha, Radka Teichmanová, Amy K Sater, Dan E Wells, Tereza Tlapáková, Lyle B Zimmerman, Vladimír Krylov BMC Genomics 2012, 13:315 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Transposable elements in phytopathogenic Verticillium spp.: insights into genome evolution and inter- and intra-specific diversification Stefan G Amyotte, Xiaoping Tan, Kayla Pennerman, Maria del Mar Jimenez-Gasco, Steven J Klosterman, Li-Jun Ma, Katherine F Dobinson, Paola Veronese BMC Genomics 2012, 13:314 (16 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Mapping the polysaccharide degradation potential of Aspergillus niger Mikael R Andersen, Malene Giese, Ronald P, Jens Nielsen BMC Genomics 2012, 13:313 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article The venom-gland transcriptome of the eastern diamondback rattlesnake (Crotalus adamanteus) Darin R Rokyta, Alan R Lemmon, Mark J Margres, Karalyn Aronow BMC Genomics 2012, 13:312 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Comparative genomics of Shiga toxin encoding bacteriophages Darren L Smith, David J Rooks, Paul CM Fogg, Alistair C Darby, Nick R Thomson, Alan J McCarthy, Heather E Allison BMC Genomics 2012, 13:311 (16 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Identification of soybean seed developmental stage-specific and tissue-specific miRNA targets by degradome sequencing Md Shamimuzzaman, Lila Vodkin BMC Genomics 2012, 13:310 (16 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Multifunctionality and diversity of GDSL esterase/lipase gene family in rice (Oryza sativa L. japonica) genome: new insights from bioinformatics analysis Hanna Chepyshko, Chia-Ping Lai, Li-Ming Huang, Jyung-Hurng Liu, Jei-Fu Shaw BMC Genomics 2012, 13:309 (15 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article An unbiased approach to identify genes involved in development in a turtle with temperature-dependent sex determination Jena L Chojnowski, Edward L Braun BMC Genomics 2012, 13:308 (15 July 2012) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Two novel candidate genes show differential mRNA accumulation at the male-forming and female-forming temperatures in embryos of the Red-eared slider turtle, which has temperature sensitive sex determination.
		Research article Cysteine peptidases and their inhibitors in Tetranychus urticae: a comparative genomic approach María Santamaría, Pedro Hernández-Crespo, Félix Ortego, Vojislava Grbic, Miodrag Grbic, Isabel Diaz, Manuel Martinez BMC Genomics 2012, 13:307 (11 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Let-7b regulates the expression of the growth hormone receptor gene in deletion-type dwarf chickens Shumao Lin, Hongmei Li, Heping Mu, Wen Luo, Ying Li, Xinzheng Jia, Sibing Wang, Xiaolu Jia, Qinghua Nie, Yugu Li, Xiquan Zhang BMC Genomics 2012, 13:306 (10 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article De novo transcriptome sequencing in a songbird, the dark-eyed junco (Junco hyemalis): genomic tools for an ecological model system Mark P Peterson, Danielle J Whittaker, Shruthi Ambreth, Suhas Sureshchandra, Aaron Buechlein, Ram Podicheti, Jeong-Hyeon Choi, Zhao Lai, Keithanne Mockatis, John Colbourne, Haixu Tang, Ellen D Ketterson BMC Genomics 2012, 13:305 (9 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Technical and biological variance structure in mRNA-Seq data: life in the real world Ann L Oberg, Brian M Bot, Diane E Grill, Gregory A Poland, Terry M Therneau BMC Genomics 2012, 13:304 (7 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Database Oomycete transcriptomics database: A resource for oomycete transcriptomes Sucheta Tripathy, Tejal Deo, Brett M Tyler BMC Genomics 2012, 13:303 (6 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Duplicate gene evolution, homoeologous recombination, and transcriptome characterization in allopolyploid cotton Lex E Flagel, Jonathan F Wendel, Joshua A Udall BMC Genomics 2012, 13:302 (6 July 2012) Abstract \| Full text \| PDF \| PubMed
		Methodology article Finding combinatorial histone code by semi-supervised biclustering Li Teng, Kai Tan BMC Genomics 2012, 13:301 (3 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression Xin Li, Jingde Zhu, Fengyi Hu, Song Ge, Mingzhi Ye, Hui Xiang, Guojie Zhang, Xiaoming Zheng, Hongyu Zhang, Shilai Zhang, Qiong Li, Ruibang Luo, Chang Yu, Jian Yu, Jingfeng Sun, Xiaoyu Zou, Xiaofeng Cao, Xianfa Xie, Jun Wang, Wen Wang BMC Genomics 2012, 13:300 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Software PePPER: a webserver for prediction of prokaryote promoter elements and regulons Anne de Jong, Hilco Pietersma, Martijn Cordes, Oscar P Kuipers, Jan Kok BMC Genomics 2012, 13:299 (2 July 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
		Research article Distinct and overlapping gene regulatory networks in BMP- and HDAC-controlled cell fate determination in the embryonic forebrain Catharina Scholl, Kathrin Weiβmüller, Pavlo Holenya, Maya Shaked-Rabi, Kerry L Tucker, Stefan Wölfl BMC Genomics 2012, 13:298 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Evolutionary analysis of the ENTH/ANTH/VHS protein superfamily reveals a coevolution between membrane trafficking and metabolism Johan-Owen De Craene, Raymond Ripp, Odile Lecompte, Julie D Thompson, Olivier Poch, Sylvie Friant BMC Genomics 2012, 13:297 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Software ReadqPCR and NormqPCR: R packages for the reading, quality checking and normalisation of RT-qPCR quantification cycle (Cq) data James R Perkins, John M Dawes, Steve B McMahon, David LH Bennett, Christine Orengo, Matthias Kohl BMC Genomics 2012, 13:296 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Transcriptional profile of Taxus chinensis cells in response to methyl jasmonate Shu-tao Li, Peng Zhang, Meng Zhang, Chun-hua Fu, Chun-fang Zhao, Yan-shan Dong, An-yuan Guo, Long-jiang Yu BMC Genomics 2012, 13:295 (2 July 2012) Abstract \| Full text \| PDF \| PubMed
		Research article Identification of genes specifically or preferentially expressed in maize silk reveals similarity and diversity in transcript abundance of different dry stigmas Xiao Xu, Hao Chen, Ya Sang, Fang Wang, Jun Ma, Xin-Qi Gao, Xian Zhang BMC Genomics 2012, 13:294 (2 July 2012) Abstract \| Full text \| PDF \| PubMed