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  1. LEF1/TCF transcription factors and their activator β-catenin are effectors of the canonical Wnt pathway. Although Wnt/β-catenin signaling has been implicated in neurodegenerative and psychiatric disorders, its...

    Authors: Marta B Wisniewska, Andrzej Nagalski, Michal Dabrowski, Katarzyna Misztal and Jacek Kuznicki
    Citation: BMC Genomics 2012 13:635
    Content type: Research article Published on:

  2. The currently known protein sequence space consists of millions of sequences in public databases and is rapidly expanding. Assigning sequences to families leads to a better understanding of protein function an...

    Authors: Bhanu Rekapalli, Kristin Wuichet, Gregory D Peterson and Igor B Zhulin
    Citation: BMC Genomics 2012 13:634
    Content type: Research article Published on:

  3. The regulation and function of mammalian RNAs has been increasingly appreciated to operate via RNA-protein interactions. With the recent discovery of thousands of novel human RNA molecules by high-throughput R...

    Authors: Zurab Siprashvili, Dan E Webster, Markus Kretz, Danielle Johnston, John L Rinn, Howard Y Chang and Paul A Khavari
    Citation: BMC Genomics 2012 13:633
    Content type: Methodology article Published on:

  4. The Gram-negative bacterium Chlamydia pneumoniae (Cpn) is the leading intracellular human pathogen responsible for respiratory infections such as pneumonia and bronchitis. Basic and applied research in pathogen b...

    Authors: Christina J Maier, Richard H Maier, Dezso Peter Virok, Matthias Maass, Helmut Hintner, Johann W Bauer and Kamil Önder
    Citation: BMC Genomics 2012 13:632
    Content type: Research article Published on:

  5. The evolutionary history and relationships of the mud shrimps (Crustacea: Decapoda: Gebiidea and Axiidea) are contentious, with previous attempts revealing mixed results. The mud shrimps were once classified i...

    Authors: Feng-Jiau Lin, Yuan Liu, Zhongli Sha, Ling Ming Tsang, Ka Hou Chu, Tin-Yam Chan, Ruiyu Liu and Zhaoxia Cui
    Citation: BMC Genomics 2012 13:631
    Content type: Research article Published on:

  6. Applying supervised learning/classification techniques to epigenomic data may reveal properties that differentiate histone modifications. Previous analyses sought to classify nucleosomes containing histone H2A...

    Authors: Daniel Capurso, Hao Xiong and Mark R Segal
    Citation: BMC Genomics 2012 13:630
    Content type: Research article Published on:

  9. The 2009 pandemic H1N1 influenza virus emerged in swine and quickly became a major global health threat. In mouse, non human primate, and swine infection models, the pH1N1 virus efficiently replicates in the l...

    Authors: Jennifer T Go, Sarah E Belisle, Nicolas Tchitchek, Terrence M Tumpey, Wenjun Ma, Juergen A Richt, David Safronetz, Heinz Feldmann and Michael G Katze
    Citation: BMC Genomics 2012 13:627
    Content type: Research article Published on:

  10. Understanding the causes underlying heterogeneity of molecular evolutionary rates among lineages is a long-standing and central question in evolutionary biology. Although several earlier studies showed that mo...

    Authors: Iker Irisarri, Diego San Mauro, Federico Abascal, Annemarie Ohler, Miguel Vences and Rafael Zardoya
    Citation: BMC Genomics 2012 13:626
    Content type: Research article Published on:

  11. Pantoea spp. are frequently isolated from a wide range of ecological niches and have various biological roles, as plant epi- or endophytes, biocontrol agents, plant-growth promoters or as pathogens of both plant ...

    Authors: Pieter De Maayer, Wai-Yin Chan, Jochen Blom, Stephanus N Venter, Brion Duffy, Theo H M Smits and Teresa A Coutinho
    Citation: BMC Genomics 2012 13:625
    Content type: Research article Published on:

  12. The availability of a high-density SNP genotyping chip and a reference genome sequence of the pig (Sus scrofa) enabled the construction of a high-density linkage map. A high-density linkage map is an essential to...

    Authors: Flavie Tortereau, Bertrand Servin, Laurent Frantz, Hendrik-Jan Megens, Denis Milan, Gary Rohrer, Ralph Wiedmann, Jonathan Beever, Alan L Archibald, Lawrence B Schook and Martien AM Groenen
    Citation: BMC Genomics 2012 13:586
    Content type: Research article Published on:

  13. The release of the porcine genome sequence offers great perspectives for Pig genetics and genomics, and more generally will contribute to the understanding of mammalian genome biology and evolution. The proces...

    Authors: Bertrand Servin, Thomas Faraut, Nathalie Iannuccelli, Diana Zelenika and Denis Milan
    Citation: BMC Genomics 2012 13:585
    Content type: Research article Published on:

  14. Insects and animals can recognize surrounding environments by detecting thousands of chemical odorants. Olfaction is a complicated process that begins in the olfactory epithelium with the specific binding of v...

    Authors: Dinh Truong Nguyen, Kyooyeol Lee, Hojun Choi, Min-kyeung Choi, Minh Thong Le, Ning Song, Jin-Hoi Kim, Han Geuk Seo, Jae-Wook Oh, Kyungtae Lee, Tae-Hun Kim and Chankyu Park
    Citation: BMC Genomics 2012 13:584
    Content type: Research article Published on:

  15. Carcass fatness is an important trait in most pig breeding programs. Following market requests, breeding plans for fresh pork consumption are usually designed to reduce carcass fat content and increase lean me...

    Authors: Luca Fontanesi, Giuseppina Schiavo, Giuliano Galimberti, Daniela Giovanna Calò, Emilio Scotti, Pier Luigi Martelli, Luca Buttazzoni, Rita Casadio and Vincenzo Russo
    Citation: BMC Genomics 2012 13:583
    Content type: Research article Published on:

  16. The pig is a biomedical model to study human and livestock traits. Many of these traits are controlled by neuropeptides that result from the cleavage of prohormones by prohormone convertases. Only 45 prohormon...

    Authors: Kenneth I Porter, Bruce R Southey, Jonathan V Sweedler and Sandra L Rodriguez-Zas
    Citation: BMC Genomics 2012 13:582
    Content type: Research article Published on:

  17. Along with the draft sequencing of the pig genome, which has been completed by an international consortium, collection of the nucleotide sequences of genes expressed in various tissues and determination of ent...

    Authors: Hirohide Uenishi, Takeya Morozumi, Daisuke Toki, Tomoko Eguchi-Ogawa, Lauretta A Rund and Lawrence B Schook
    Citation: BMC Genomics 2012 13:581
    Content type: Research article Published on:

  18. The application of DNA markers for the identification of biological samples from both human and non-human species is widespread and includes use in food authentication. In the food industry the financial incen...

    Authors: Samantha Wilkinson, Alan L Archibald, Chris S Haley, Hendrik-Jan Megens, Richard PMA Crooijmans, Martien AM Groenen, Pamela Wiener and Rob Ogden
    Citation: BMC Genomics 2012 13:580
    Content type: Research article Published on:

  19. Fuzzless-lintless cotton mutants are considered to be the ideal material to understand the molecular mechanisms involved in fibre cell development. Although there are few reports on transcriptome and proteome ...

    Authors: Kethireddy Venkata Padmalatha, Deepak P Patil, Krishan Kumar, Gurusamy Dhandapani, Mogilicherla Kanakachari, Mullapudi LV Phanindra, Saravanan Kumar, T C Mohan, Neha Jain, Arkalgud H Prakash, Hiremath Vamadevaiah, Ishwarappa S Katageri, Sadhu Leelavathi, Malireddy K Reddy, Polumetla Ananda Kumar and Vanga Siva Reddy
    Citation: BMC Genomics 2012 13:624
    Content type: Research article Published on:

  20. To balance the demand for uptake of essential elements with their potential toxicity living cells have complex regulatory mechanisms. Here, we describe a genome-wide screen to identify genes that impact the el...

    Authors: Danni Yu, John M C Danku, Ivan Baxter, Sungjin Kim, Olena K Vatamaniuk, Olga Vitek, Mourad Ouzzani and David E Salt
    Citation: BMC Genomics 2012 13:623
    Content type: Research article Published on:

  21. Mitochondrial (mt) genomes vary considerably in size, structure and gene content. The mt genomes of the phylum Apicomplexa, which includes important human pathogens such as the malaria parasite Plasmodium, also s...

    Authors: Kenji Hikosaka, Naotoshi Tsuji, Yoh-ichi Watanabe, Hiroe Kishine, Toshihiro Horii, Ikuo Igarashi, Kiyoshi Kita and Kazuyuki Tanabe
    Citation: BMC Genomics 2012 13:622
    Content type: Research article Published on:

  22. Leishmania major, a protozoan parasite, is the causative agent of cutaneous leishmaniasis. Due to the development of resistance against the currently available anti-leishmanial drugs, there is a growing need for ...

    Authors: V S Gowri, Indira Ghosh, Amit Sharma and Rentala Madhubala
    Citation: BMC Genomics 2012 13:621
    Content type: Research article Published on:

  24. Triple-negative breast cancers (BC) represent a heterogeneous subtype of BCs, generally associated with an aggressive clinical course and where targeted therapies are currently limited. Target validation studi...

    Authors: Anita Grigoriadis, Alan Mackay, Elodie Noel, Pei Jun Wu, Rachel Natrajan, Jessica Frankum, Jorge S Reis-Filho and Andrew Tutt
    Citation: BMC Genomics 2012 13:619
    Content type: Research article Published on:

  25. Targeted genomic enrichment (TGE) is a widely used method for isolating and enriching specific genomic regions prior to massively parallel sequencing. To make effective use of sequencer output, barcoding and s...

    Authors: A Eliot Shearer, Michael S Hildebrand, Harini Ravi, Swati Joshi, Angelica C Guiffre, Barbara Novak, Scott Happe, Emily M LeProust and Richard JH Smith
    Citation: BMC Genomics 2012 13:618
    Content type: Research article Published on:

  26. Schistosoma mansoni is one of the causative agents of schistosomiasis, a neglected tropical disease that affects about 237 million people worldwide. Despite recent efforts, we still lack a general understanding o...

    Authors: Larissa Lopes Silva, Marina Marcet-Houben, Laila Alves Nahum, Adhemar Zerlotini, Toni Gabaldón and Guilherme Oliveira
    Citation: BMC Genomics 2012 13:617
    Content type: Research article Published on:

  28. The development of complex responses to hypoxia has played a key role in the evolution of mammals, as inadequate response to this condition is frequently associated with cardiovascular diseases, developmental ...

    Authors: Assaf Malik, Abraham Korol, Mathias Weber, Thomas Hankeln, Aaron Avivi and Mark Band
    Citation: BMC Genomics 2012 13:615
    Content type: Research article Published on:

  29. Antibody responses against Anopheles salivary proteins can indicate individual exposure to bites of malaria vectors. The extent to which these salivary proteins are species-specific is not entirely resolved. Thus...

    Authors: Albin Fontaine, Thierry Fusaï, Sébastien Briolant, Sylvain Buffet, Claude Villard, Emilie Baudelet, Mathieu Pophillat, Samuel Granjeaud, Christophe Rogier and Lionel Almeras
    Citation: BMC Genomics 2012 13:614
    Content type: Research article Published on:

  30. Cyanobacteria can form massive toxic blooms in fresh and brackish bodies of water and are frequently responsible for the poisoning of animals and pose a health risk for humans. Anabaena is a genus of filamentous ...

    Authors: Hao Wang, Kaarina Sivonen, Leo Rouhiainen, David P Fewer, Christina Lyra, Anne Rantala-Ylinen, Johanna Vestola, Jouni Jokela, Kaisa Rantasärkkä, Zhijie Li and Bin Liu
    Citation: BMC Genomics 2012 13:613
    Content type: Research article Published on:

  32. Transitions from cross- to self-fertilization are associated with increased genetic drift rendering weakly selected mutations effectively neutral. The effect of drift is predicted to reduce selective constrain...

    Authors: Rob W Ness, Mathieu Siol and Spencer C H Barrett
    Citation: BMC Genomics 2012 13:611
    Content type: Research article Published on:

  33. Interpreting gene expression profiles obtained from heterogeneous samples can be difficult because bulk gene expression measures are not resolved to individual cell populations. We have recently devised Popula...

    Authors: Alexandre Kuhn, Azad Kumar, Alexandra Beilina, Allissa Dillman, Mark R Cookson and Andrew B Singleton
    Citation: BMC Genomics 2012 13:610
    Content type: Research article Published on:

  34. The genomes of three major mosquito vectors of human diseases, Anopheles gambiae, Aedes aegypti, and Culex pipiens quinquefasciatus, have been previously sequenced. C. p. quinquefasciatus has the largest number o...

    Authors: Liangzhen Yan, Pengcheng Yang, Feng Jiang, Na Cui, Enbo Ma, Chuanling Qiao and Feng Cui
    Citation: BMC Genomics 2012 13:609
    Content type: Research article Published on:

  35. Cultivated peanut or groundnut (Arachis hypogaea L.) is an important oilseed crop with an allotetraploid genome (AABB, 2n = 4x = 40). Both the low level of genetic variation within the cultivated gene pool and it...

    Authors: Yufang Guo, Sameer Khanal, Shunxue Tang, John E Bowers, Adam F Heesacker, Nelly Khalilian, Ervin D Nagy, Dong Zhang, Christopher A Taylor, H Thomas Stalker, Peggy Ozias-Akins and Steven J Knapp
    Citation: BMC Genomics 2012 13:608
    Content type: Research article Published on:

  36. Empirical evaluations of sexually dimorphic expression of genes on the mammalian X-chromosome are needed to understand the evolutionary forces and the gene-regulatory mechanisms controlling this chromosome. We...

    Authors: Björn Reinius, Martin M Johansson, Katarzyna J Radomska, Edward H Morrow, Gaurav K Pandey, Chandrasekhar Kanduri, Rickard Sandberg, Robert W Williams and Elena Jazin
    Citation: BMC Genomics 2012 13:607
    Content type: Research article Published on:

  37. Several methods have recently been developed to identify regions of the genome that have been exposed to strong selection. However, recent theoretical and empirical work suggests that polygenic models are requ...

    Authors: Jared E Decker, Daniel A Vasco, Stephanie D McKay, Matthew C McClure, Megan M Rolf, JaeWoo Kim, Sally L Northcutt, Stewart Bauck, Brent W Woodward, Robert D Schnabel and Jeremy F Taylor
    Citation: BMC Genomics 2012 13:606
    Content type: Research article Published on:

  38. Oomycetes are fungal-like microorganisms evolutionary distinct from true fungi, belonging to the Stramenopile lineage and comprising major plant pathogens. Both oomycetes and fungi express proteins able to int...

    Authors: Mathieu Larroque, Roland Barriot, Arnaud Bottin, Annick Barre, Pierre Rougé, Bernard Dumas and Elodie Gaulin
    Citation: BMC Genomics 2012 13:605
    Content type: Research article Published on:

  39. Extant sauropsids (reptiles and birds) are divided into two major lineages, the lineage of Testudines (turtles) and Archosauria (crocodilians and birds) and the lineage of Lepidosauria (tuatara, lizards, worm ...

    Authors: Kazumi Matsubara, Shigehiro Kuraku, Hiroshi Tarui, Osamu Nishimura, Chizuko Nishida, Kiyokazu Agata, Yoshinori Kumazawa and Yoichi Matsuda
    Citation: BMC Genomics 2012 13:604
    Content type: Research article Published on:

  40. Transmission of arthropod-borne apicomplexan parasites that cause disease and result in death or persistent infection represents a major challenge to global human and animal health. First described in 1901 as Pir...

    Authors: Lowell S Kappmeyer, Mathangi Thiagarajan, David R Herndon, Joshua D Ramsay, Elisabet Caler, Appolinaire Djikeng, Joseph J Gillespie, Audrey OT Lau, Eric H Roalson, Joana C Silva, Marta G Silva, Carlos E Suarez, Massaro W Ueti, Vishvanath M Nene, Robert H Mealey, Donald P Knowles…
    Citation: BMC Genomics 2012 13:603
    Content type: Research article Published on:

  41. Faba bean (Vicia faba L.) is an important food legume crop, grown for human consumption globally including in China, Turkey, Egypt and Ethiopia. Although genetic gain has been made through conventional selection ...

    Authors: Tao Yang, Shi-ying Bao, Rebecca Ford, Teng-jiao Jia, Jian-ping Guan, Yu-hua He, Xue-lian Sun, Jun-ye Jiang, Jun-jie Hao, Xiao-yan Zhang and Xu-xiao Zong
    Citation: BMC Genomics 2012 13:602
    Content type: Research article Published on:

  42. Monosporascus cannonballus is the main causal agent of melon vine decline disease. Several studies have been carried out mainly focused on the study of the penetration of this pathogen into melon roots, the evalu...

    Authors: Cristina Roig, Ana Fita, Gabino Ríos, John P Hammond, Fernando Nuez and Belén Picó
    Citation: BMC Genomics 2012 13:601
    Content type: Research article Published on:

  43. The yak (Bos grunniens) is a long-haired bovine that lives at high altitudes and is an important source of milk, meat, fiber and fuel. The recent sequencing, assembly and annotation of its genome are expected to ...

    Authors: Quanjun Hu, Tao Ma, Kun Wang, Ting Xu, Jianquan Liu and Qiang Qiu
    Citation: BMC Genomics 2012 13:600
    Content type: Database Published on:

  44. Pine wilt disease (PWD), caused by the pinewood nematode (PWN; Bursaphelenchus xylophilus), damages and kills pine trees and is causing serious economic damage worldwide. Although the ecological mechanism of infe...

    Authors: Carla S Santos, Miguel Pinheiro, Ana I Silva, Conceição Egas and Marta W Vasconcelos
    Citation: BMC Genomics 2012 13:599
    Content type: Research article Published on:

  45. Francisella is a genus of gram-negative bacterium highly virulent in fishes and human where F. tularensis is causing the serious disease tularaemia in human. Recently Francisella species have been reported to cau...

    Authors: Settu Sridhar, Animesh Sharma, Heidi Kongshaug, Frank Nilsen and Inge Jonassen
    Citation: BMC Genomics 2012 13:598
    Content type: Research article Published on:

  46. Development of a high quality reference sequence is a daunting task in crops like wheat with large (~17Gb), highly repetitive (>80%) and polyploid genome. To achieve complete sequence assembly of such genomes,...

    Authors: Ajay Kumar, Kristin Simons, Muhammad J Iqbal, Monika Michalak de Jiménez, Filippo M Bassi, Farhad Ghavami, Omar Al-Azzam, Thomas Drader, Yi Wang, Ming-Cheng Luo, Yong Q Gu, Anne Denton, Gerard R Lazo, Steven S Xu, Jan Dvorak, Penny MA Kianian…
    Citation: BMC Genomics 2012 13:597
    Content type: Research article Published on:

  47. Malignant cells in tumours of B-cell origin account for 0.1% to 98% of the total cell content, depending on disease entity. Recently, gene expression profiles (GEPs) of B-cell lymphomas based on microarray tec...

    Authors: Maria Bro Kloster, Anders Ellern Bilgrau, Maria Rodrigo-Domingo, Kim Steve Bergkvist, Alexander Schmitz, Mads Sønderkær, Julie Støve Bødker, Steffen Falgreen, Mette Nyegaard, Hans Erik Johnsen, Kåre Lehmann Nielsen, Karen Dybkaer and Martin Bøgsted
    Citation: BMC Genomics 2012 13:596
    Content type: Methodology article Published on:

  48. Upon the completion of whole genome sequencing, thorough genome annotation that associates genome sequences with biological meanings is essential. Genome annotation depends on the availability of transcript in...

    Authors: Shikai Liu, Yu Zhang, Zunchun Zhou, Geoff Waldbieser, Fanyue Sun, Jianguo Lu, Jiaren Zhang, Yanliang Jiang, Hao Zhang, Xiuli Wang, KV Rajendran, Lester Khoo, Huseyin Kucuktas, Eric Peatman and Zhanjiang Liu
    Citation: BMC Genomics 2012 13:595
    Content type: Research article Published on:

  49. Most modern citrus cultivars have an interspecific origin. As a foundational step towards deciphering the interspecific genome structures, a reference whole genome sequence was produced by the International Ci...

    Authors: Patrick Ollitrault, Javier Terol, Chunxian Chen, Claire T Federici, Samia Lotfy, Isabelle Hippolyte, Frédérique Ollitrault, Aurélie Bérard, Aurélie Chauveau, Jose Cuenca, Gilles Costantino, Yildiz Kacar, Lisa Mu, Andres Garcia-Lor, Yann Froelicher, Pablo Aleza…
    Citation: BMC Genomics 2012 13:593
    Content type: Research article Published on:

  50. We have recently identified a number of Quantitative Trait Loci (QTL) contributing to the 2-fold muscle weight difference between the LG/J and SM/J mouse strains and refined their confidence intervals. To faci...

    Authors: Arimantas Lionikas, Caroline Meharg, Jonathan MJ Derry, Aivaras Ratkevicius, Andrew M Carroll, David J Vandenbergh and David A Blizard
    Citation: BMC Genomics 2012 13:592
    Content type: Research article Published on:

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BMC Genomics

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