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  1. Cancer cells frequently adopt cellular and molecular alterations and acquire resistance to cytostatic drugs. Chemotherapy with oxaliplatin is among the leading treatments for colorectal cancer with a response ...

    Authors: Piroska Virag, Eva Fischer-Fodor, Maria Perde-Schrepler, Ioana Brie, Corina Tatomir, Loredana Balacescu, Ioana Berindan-Neagoe, Bogdan Victor and Ovidiu Balacescu
    Citation: BMC Genomics 2013 14:480
    Content type: Research article Published on:

  2. Gcn5 belongs to a family of histone acetyltransferases (HATs) that regulate protein function by acetylation. Gcn5 plays several different roles in gene transcription throughout the genome but their characteris...

    Authors: Yongtao Xue-Franzén, Johan Henriksson, Thomas R Bürglin and Anthony PH Wright
    Citation: BMC Genomics 2013 14:479
    Content type: Research article Published on:

  3. Nonsense-Mediated decay (NMD) selectively degrades mRNA transcripts that carry premature stop codons. NMD is often triggered by alternative splicing (AS) modifications introducing such codons. NMD plays an imp...

    Authors: Lilach Soreq, Hagai Bergman, Zvi Israel and Hermona Soreq
    Citation: BMC Genomics 2013 14:478
    Content type: Research article Published on:

  4. Genlisea aurea (Lentibulariaceae) is a carnivorous plant with unusually small genome size - 63.6 Mb – one of the smallest known among higher plants. Data on the genome sizes and the phylogeny of Genlisea suggest ...

    Authors: Evgeny V Leushkin, Roman A Sutormin, Elena R Nabieva, Aleksey A Penin, Alexey S Kondrashov and Maria D Logacheva
    Citation: BMC Genomics 2013 14:476
    Content type: Research article Published on:

  5. The endothelial compartment, comprising arterial, venous and lymphatic cell types, is established prenatally in association with rapid phenotypic and functional changes. The molecular mechanisms underpinning t...

    Authors: Jihoon E Joo, Ursula Hiden, Luciana Lassance, Lavinia Gordon, David J Martino, Gernot Desoye and Richard Saffery
    Citation: BMC Genomics 2013 14:475
    Content type: Research article Published on:

  6. Actinobacteria have adapted to contrasted ecological niches such as the soil, and among others to plants or animals as pathogens or symbionts. Mycobacterium genus contains mostly pathogens that cause a variety of...

    Authors: Subarna Thakur, Philippe Normand, Vincent Daubin, Louis S Tisa and Arnab Sen
    Citation: BMC Genomics 2013 14:474
    Content type: Research article Published on:

  7. Neurofibromatosis type 1 (NF1) is a common dominant tumor predisposition syndrome affecting 1 in 3,500 individuals. The hallmarks of NF1 are the development of peripheral nerve sheath tumors either benign (der...

    Authors: Julien Masliah-Planchon, Eric Pasmant, Armelle Luscan, Ingrid Laurendeau, Nicolas Ortonne, Mikael Hivelin, Jennifer Varin, Laurence Valeyrie-Allanore, Valérie Dumaine, Laurent Lantieri, Karen Leroy, Béatrice Parfait, Pierre Wolkenstein, Michel Vidaud, Dominique Vidaud and Ivan Bièche
    Citation: BMC Genomics 2013 14:473
    Content type: Research article Published on:

  8. Offspring of pregnancy complicated with preeclampsia are at high risk for hypertension, stroke and possibly obesity. The mechanisms behind the association of intrauterine exposure to preeclampsia and high risk...

    Authors: Jing He, Aiping Zhang, Min Fang, Rong Fang, Jiamei Ge, Yuan Jiang, Hong Zhang, Cong Han, Xiaoqun Ye, Danqing Yu, Hefeng Huang, Yun Liu and Minyue Dong
    Citation: BMC Genomics 2013 14:472
    Content type: Research article Published on:

  9. Next generation sequencing provides new opportunities to explore transcriptomes. However, challenges remain for accurate differentiation of homoeoalleles and paralogs, particularly in polyploid organisms with ...

    Authors: Juan J Gutierrez-Gonzalez, Zheng Jin Tu and David F Garvin
    Citation: BMC Genomics 2013 14:471
    Content type: Research article Published on:

  10. A fundamental question in molecular neurobiology is how genes that determine basic neuronal properties shape the functional organization of brain circuits underlying complex learned behaviors. Given the growin...

    Authors: Peter V Lovell, Julia B Carleton and Claudio V Mello
    Citation: BMC Genomics 2013 14:470
    Content type: Research article Published on:

  11. Biopsies taken from individual tumours exhibit extensive differences in their cellular composition due to the inherent heterogeneity of cancers and vagaries of sample collection. As a result genes expressed in...

    Authors: Tamasin N Doig, David A Hume, Thanasis Theocharidis, John R Goodlad, Christopher D Gregory and Tom C Freeman
    Citation: BMC Genomics 2013 14:469
    Content type: Research article Published on:

  13. Toxoplasma gondii has a largely clonal population in North America and Europe, with types I, II and III clonal lineages accounting for the majority of strains isolated from patients. RH, a particular type I strai...

    Authors: Ninghan Yang, Andrew Farrell, Wendy Niedelman, Mariane Melo, Diana Lu, Lindsay Julien, Gabor T Marth, Marc-Jan Gubbels and Jeroen PJ Saeij
    Citation: BMC Genomics 2013 14:467
    Content type: Research article Published on:

  14. High throughput sequencing is frequently used to discover the location of regulatory interactions on chromatin. However, techniques that enrich DNA where regulatory activity takes place, such as chromatin immu...

    Authors: Sarah K Bowman, Matthew D Simon, Aimee M Deaton, Michael Tolstorukov, Mark L Borowsky and Robert E Kingston
    Citation: BMC Genomics 2013 14:466
    Content type: Methodology article Published on:

  16. The diamondback moth (DBM), Plutella xylostella, is one of the most harmful insect pests for crucifer crops worldwide. DBM has rapidly evolved high resistance to most conventional insecticides such as pyrethroids...

    Authors: Akiya Jouraku, Kimiko Yamamoto, Seigo Kuwazaki, Masahiro Urio, Yoshitaka Suetsugu, Junko Narukawa, Kazuhisa Miyamoto, Kanako Kurita, Hiroyuki Kanamori, Yuichi Katayose, Takashi Matsumoto and Hiroaki Noda
    Citation: BMC Genomics 2013 14:464
    Content type: Database Published on:

  17. Brassica rapa (AA) contains very diverse forms which include oleiferous types and many vegetable types. Genome sequence of B. rapa line Chiifu (ssp. pekinensis), a leafy vegetable type, was published in 2011. Usi...

    Authors: Kumar Paritosh, Satish K Yadava, Vibha Gupta, Priya Panjabi-Massand, Yashpal S Sodhi, Akshay K Pradhan and Deepak Pental
    Citation: BMC Genomics 2013 14:463
    Content type: Research article Published on:

  18. The phylum Platyhelminthes (flatworms) contains an important group of bilaterian organisms responsible for many debilitating and chronic infectious diseases of human and animal populations inhabiting the plane...

    Authors: Kathrin K Geyer, Iain W Chalmers, Neil MacKintosh, Julie E Hirst, Rory Geoghegan, Mathieu Badets, Peter M Brophy, Klaus Brehm and Karl F Hoffmann
    Citation: BMC Genomics 2013 14:462
    Content type: Research article Published on:

  20. The number of fibrous roots that develop into storage roots determines sweetpotato yield. The aim of the present study was to identify the molecular mechanisms involved in the initiation of storage root format...

    Authors: Nurit Firon, Don LaBonte, Arthur Villordon, Yanir Kfir, Julio Solis, Evgenia Lapis, Temima Schnitzer Perlman, Adi Doron-Faigenboim, Amots Hetzroni, Leviah Althan and Lahan Adani Nadir
    Citation: BMC Genomics 2013 14:460
    Content type: Research article Published on:

  21. In the intracellular pathogen Brucella spp., the activation of the stringent response, a global regulatory network providing rapid adaptation to growth-affecting stress conditions such as nutrient deficiency, is ...

    Authors: Nabil Hanna, Safia Ouahrani-Bettache, Kenneth L Drake, L Garry Adams, Stephan Köhler and Alessandra Occhialini
    Citation: BMC Genomics 2013 14:459
    Content type: Research article Published on:

  22. Meat quality is an important economic trait in chickens. To identify loci and genes associated with meat quality traits, we conducted a genome-wide association study (GWAS) of F2 populations derived from a loc...

    Authors: Yanfa Sun, Guiping Zhao, Ranran Liu, Maiqing Zheng, Yaodong Hu, Dan Wu, Lei Zhang, Peng Li and Jie Wen
    Citation: BMC Genomics 2013 14:458
    Content type: Research article Published on:

  23. Xanthophylls, oxygenated derivatives of carotenes, play critical roles in photosynthetic apparatus of cyanobacteria, algae, and higher plants. Although the xanthophylls biosynthetic pathway of algae is largely...

    Authors: Hongli Cui, Xiaona Yu, Yan Wang, Yulin Cui, Xueqin Li, Zhaopu Liu and Song Qin
    Citation: BMC Genomics 2013 14:457
    Content type: Research article Published on:

  24. Elevated temperatures induce activation of the heat shock transcription factor 1 (HSF1) which in somatic cells leads to heat shock proteins synthesis and cytoprotection. However, in the male germ cells (sperma...

    Authors: Małgorzata Kus-Liśkiewicz, Joanna Polańska, Joanna Korfanty, Magdalena Olbryt, Natalia Vydra, Agnieszka Toma and Wiesława Widłak
    Citation: BMC Genomics 2013 14:456
    Content type: Research article Published on:

  25. Copy number variation (CNV), an important source of diversity in genomic structure, is frequently found in clusters called CNV regions (CNVRs). CNVRs are strongly associated with segmental duplications (SDs), ...

    Authors: Juzoh Umemori, Akihiro Mori, Kenji Ichiyanagi, Takeaki Uno and Tsuyoshi Koide
    Citation: BMC Genomics 2013 14:455
    Content type: Research article Published on:

  26. Alpha tubulin is a fundamental component of the cytoskeleton which is responsible for cell shape and is involved in cell division, ciliary and flagellar motility and intracellular transport. Alpha tubulin gene...

    Authors: César A Ramírez, José M Requena and Concepción J Puerta
    Citation: BMC Genomics 2013 14:454
    Content type: Research article Published on:

  27. Intramuscular fat (IMF) content is positively correlated with aspects of pork palatability, including flavour, juiciness and overall acceptability. The ratio of energy to protein in the finishing diet of growi...

    Authors: Ruth M Hamill, Ozlem Aslan, Anne M Mullen, John V O’Doherty, Jean McBryan, Dermot G Morris and Torres Sweeney
    Citation: BMC Genomics 2013 14:453
    Content type: Research article Published on:

  28. The sablefish (order: Scorpaeniformes) is an economically important species in commercial fisheries of the North Pacific and an emerging species in aquaculture. Aside from a handful of sequences in NCBI and a ...

    Authors: Eric B Rondeau, Amber M Messmer, Dan S Sanderson, Stuart G Jantzen, Kristian R von Schalburg, David R Minkley, Jong S Leong, Graham M Macdonald, Amanda E Davidsen, William A Parker, Rosetta SA Mazzola, Briony Campbell and Ben F Koop
    Citation: BMC Genomics 2013 14:452
    Content type: Research article Published on:

  29. The microsporidia parasite Nosema contributes to the steep global decline of honey bees that are critical pollinators of food crops. There are two species of Nosema that have been found to infect honey bees, Nose...

    Authors: Yan ping Chen, Jeffery S Pettis, Yan Zhao, Xinyue Liu, Luke J Tallon, Lisa D Sadzewicz, Renhua Li, Huoqing Zheng, Shaokang Huang, Xuan Zhang, Michele C Hamilton, Stephen F Pernal, Andony P Melathopoulos, Xianghe Yan and Jay D Evans
    Citation: BMC Genomics 2013 14:451
    Content type: Research article Published on:

  30. The genetic network involved in the bacterial cell cycle is poorly understood even though it underpins the remarkable ability of bacteria to proliferate. How such network evolves is even less clear. The major ...

    Authors: Gang Fang, Karla D Passalacqua, Jason Hocking, Paula Montero Llopis, Mark Gerstein, Nicholas H Bergman and Christine Jacobs-Wagner
    Citation: BMC Genomics 2013 14:450
    Content type: Research article Published on:

  31. Copy number variable regions (CNVRs) can result in drastic phenotypic differences and may therefore be subject to selection during domestication. Studying copy number variation in relation to domestication is ...

    Authors: Yogesh Paudel, Ole Madsen, Hendrik-Jan Megens, Laurent AF Frantz, Mirte Bosse, John WM Bastiaansen, Richard PMA Crooijmans and Martien AM Groenen
    Citation: BMC Genomics 2013 14:449
    Content type: Research article Published on:

  32. Rapid acquisition of accurate genotyping information is essential for all genetic marker-based studies. For species with relatively small genomes, complete genome resequencing is a feasible approach for genoty...

    Authors: Daryl T Morishige, Patricia E Klein, Josie L Hilley, Sayed Mohammad Ebrahim Sahraeian, Arun Sharma and John E Mullet
    Citation: BMC Genomics 2013 14:448
    Content type: Methodology article Published on:

  33. In contrast to most animal genomes, mitochondrial genomes in species belonging to the phylum Cnidaria show distinct variations in genome structure, including the mtDNA structure (linear or circular) and the pr...

    Authors: Shen Song, Feng Jiang, Jianbo Yuan, Wei Guo and Yongwang Miao
    Citation: BMC Genomics 2013 14:447
    Content type: Research article Published on:

  34. Genome- and population-wide re-sequencing would allow for most efficient detection of causal trait variants. However, despite a strong decrease of costs for next-generation sequencing in the last few years, re...

    Authors: Sandra Jansen, Bernhard Aigner, Hubert Pausch, Michal Wysocki, Sebastian Eck, Anna Benet-Pagès, Elisabeth Graf, Thomas Wieland, Tim M Strom, Thomas Meitinger and Ruedi Fries
    Citation: BMC Genomics 2013 14:446
    Content type: Research article Published on:

  35. Pattern-oriented chemical profiling is increasingly being used to characterize the phytochemical composition of herbal medicines for quality control purposes. Ideally, a fingerprint of the biological effects s...

    Authors: Rebekah Cook, James R Hennell, Samiuela Lee, Cheang S Khoo, Maria C Carles, Vincent J Higgins, Suresh Govindaraghavan and Nikolaus J Sucher
    Citation: BMC Genomics 2013 14:445
    Content type: Research article Published on:

  36. With the advent of Next Generation Sequencing (NGS) technologies, the ability to generate large amounts of sequence data has revolutionized the genomics field. Most RNA viruses have relatively small genomes in...

    Authors: Denise A Marston, Lorraine M McElhinney, Richard J Ellis, Daniel L Horton, Emma L Wise, Stacey L Leech, Dan David, Xavier de Lamballerie and Anthony R Fooks
    Citation: BMC Genomics 2013 14:444
    Content type: Methodology article Published on:

  37. The heterogeneous progression of atherosclerotic disease in the peripheral arteries is currently not well understood. In humans, artery specific disease progression is partly attributed to the local hemodynami...

    Authors: Martin Bahls, Christopher A Bidwell, Juan Hu, Armando Tellez, Greg L Kaluza, Juan F Granada, Christian G Krueger, Jess D Reed, M Harold Laughlin, William G Van Alstine and Sean C Newcomer
    Citation: BMC Genomics 2013 14:443
    Content type: Research article Published on:

  38. Abiotic stress causes disturbances in the cellular homeostasis. Re-adjustment of balance in carbon, nitrogen and phosphorus metabolism therefore plays a central role in stress adaptation. However, it is curren...

    Authors: Urte Schlüter, Christian Colmsee, Uwe Scholz, Andrea Bräutigam, Andreas PM Weber, Nina Zellerhoff, Marcel Bucher, Holger Fahnenstich and Uwe Sonnewald
    Citation: BMC Genomics 2013 14:442
    Content type: Research article Published on:

  39. DNA duplications constitute important precursors for genome variation. Here we analyzed an unequal duplication harboring a beneficial mutation that may provide alternative evolutionary outcomes.

    Authors: Ram P Maharjan, Joël Gaffé, Jessica Plucain, Martin Schliep, Lei Wang, Lu Feng, Olivier Tenaillon, Thomas Ferenci and Dominique Schneider
    Citation: BMC Genomics 2013 14:441
    Content type: Research article Published on:

  40. Many large-scale studies analyzed high-throughput genomic data to identify altered pathways essential to the development and progression of specific types of cancer. However, no previous study has been extende...

    Authors: Tae Hyun Hwang, Gowtham Atluri, Rui Kuang, Vipin Kumar, Timothy Starr, Kevin AT Silverstein, Peter M Haverty, Zemin Zhang and Jinfeng Liu
    Citation: BMC Genomics 2013 14:440
    Content type: Research article Published on:

  41. DNA extracted from historical samples is an important resource for understanding genetic consequences of anthropogenic influences and long-term environmental change. However, such samples generally yield DNA o...

    Authors: Susan E Johnston, Meri Lindqvist, Eero Niemelä, Panu Orell, Jaakko Erkinaro, Matthew P Kent, Sigbjørn Lien, Juha-Pekka Vähä, Anti Vasemägi and Craig R Primmer
    Citation: BMC Genomics 2013 14:439
    Content type: Methodology article Published on:

  42. MicroRNAs are very small non-coding RNAs that interact with microRNA recognition elements (MREs) on their target messenger RNAs. Varying the concentration of a given microRNA may influence the expression of ma...

    Authors: Cheng-Tao Wu, Chien-Ying Chiou, Ho-Chen Chiu and Ueng-Cheng Yang
    Citation: BMC Genomics 2013 14:438
    Content type: Research article Published on:

  43. Ryegrasses and fescues (genera, Lolium and Festuca) are species of forage and turf grasses which are used widely in agricultural and amenity situations. They are classified within the sub-family Pooideae and so a...

    Authors: Julie King, Ann Thomas, Caron James, Ian King and Ian Armstead
    Citation: BMC Genomics 2013 14:437
    Content type: Research article Published on:

  44. The ability to adapt to environments with fluctuating nutrient availability is vital for bacterial survival. Although essential for growth, few nitrogen metabolism genes have been identified or fully character...

    Authors: Kerstin J Williams, William A Bryant, Victoria A Jenkins, Geraint R Barton, Adam A Witney, John W Pinney and Brian D Robertson
    Citation: BMC Genomics 2013 14:436
    Content type: Research article Published on:

  45. Legionella is a water and soil bacterium that can infect humans, causing a pneumonia known as Legionnaires’ disease. The pneumonia is almost exclusively caused by the species L. pneumophila, of which serogroup 1 ...

    Authors: Jeroen W Den Boer, Sjoerd M Euser, Nico J Nagelkerke, Frank Schuren, Sophie Jarraud and Jerome Etienne
    Citation: BMC Genomics 2013 14:435
    Content type: Research article Published on:

  46. Salamanders are unique among vertebrates in their ability to completely regenerate amputated limbs through the mediation of blastema cells located at the stump ends. This regeneration is nerve-dependent becaus...

    Authors: Cheng-Han Wu, Mong-Hsun Tsai, Chia-Chuan Ho, Chien-Yu Chen and Hsuan-Shu Lee
    Citation: BMC Genomics 2013 14:434
    Content type: Research article Published on:

  47. Calcium-dependent protein kinases (CDPKs) have been shown to play important roles in various physiological processes, including plant growth and development, abiotic and biotic stress responses and plant hormo...

    Authors: Xiangpei Kong, Wei Lv, Shanshan Jiang, Dan Zhang, Guohua Cai, Jiaowen Pan and Dequan Li
    Citation: BMC Genomics 2013 14:433
    Content type: Research article Published on:

  48. The major clinical manifestations of Entamoeba histolytica infection include amebic colitis and liver abscess. However the majority of infections remain asymptomatic. Earlier reports have shown that some E. histo...

    Authors: Vandana Kumari, Lakshmi Rani Iyer, Riti Roy, Varsha Bhargava, Suchita Panda, Jaishree Paul, Jaco J Verweij, C Graham Clark, Alok Bhattacharya and Sudha Bhattacharya
    Citation: BMC Genomics 2013 14:432
    Content type: Research article Published on:

  49. Mutans streptococci are a group of bacteria significantly contributing to tooth decay. Their genetic variability is however still not well understood.

    Authors: Lifu Song, Wei Wang, Georg Conrads, Anke Rheinberg, Helena Sztajer, Michael Reck, Irene Wagner-Döbler and An-Ping Zeng
    Citation: BMC Genomics 2013 14:430
    Content type: Research article Published on:

    The Erratum to this article has been published in BMC Genomics 2013 14:811

  50. Chromatin plays a critical role in regulating transcription factors (TFs) binding to their canonical transcription factor binding sites (TFBS). Recent studies in vertebrates show that many TFs preferentially b...

    Authors: Ximiao He, Raghunath Chatterjee, Sam John, Hector Bravo, B K Sathyanarayana, Simon C Biddie, Peter C FitzGerald, John A Stamatoyannopoulos, Gordon L Hager and Charles Vinson
    Citation: BMC Genomics 2013 14:428
    Content type: Research article Published on:

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BMC Genomics

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