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  1. Research

    Sparse feature selection for classification and prediction of metastasis in endometrial cancer

    Metastasis via pelvic and/or para-aortic lymph nodes is a major risk factor for endometrial cancer. Lymph-node resection ameliorates risk but is associated with significant co-morbidities. Incidence in patient...

    Mehmet Eren Ahsen, Todd P. Boren, Nitin K. Singh, Burook Misganaw, David G. Mutch, Kathleen N. Moore, Floor J. Backes, Carolyn K. McCourt, Jayanthi S. Lea, David S. Miller, Michael A. White and Mathukumalli Vidyasagar

    BMC Genomics 2017 18(Suppl 3):233

    Published on: 27 March 2017

  2. Research article

    Herboxidiene triggers splicing repression and abiotic stress responses in plants

    Constitutive and alternative splicing of pre-mRNAs from multiexonic genes controls the diversity of the proteome; these precisely regulated processes also fine-tune responses to cues related to growth, develop...

    Sahar AlShareef, Yu Ling, Haroon Butt, Kiruthiga G. Mariappan, Moussa Benhamed and Magdy M. Mahfouz

    BMC Genomics 2017 18:260

    Published on: 27 March 2017

  3. Research article

    Exploring structural variation and gene family architecture with De Novo assemblies of 15 Medicago genomes

    Previous studies exploring sequence variation in the model legume, Medicago truncatula, relied on mapping short reads to a single reference. However, read-mapping approaches are inadequate to examine large, diver...

    Peng Zhou, Kevin A. T. Silverstein, Thiruvarangan Ramaraj, Joseph Guhlin, Roxanne Denny, Junqi Liu, Andrew D. Farmer, Kelly P. Steele, Robert M. Stupar, Jason R. Miller, Peter Tiffin, Joann Mudge and Nevin D. Young

    BMC Genomics 2017 18:261

    Published on: 27 March 2017

  4. Research article

    Genome-wide identification of conserved intronic non-coding sequences using a Bayesian segmentation approach

    Computational identification of non-coding RNAs (ncRNAs) is a challenging problem. We describe a genome-wide analysis using Bayesian segmentation to identify intronic elements highly conserved between three ev...

    Manjula Algama, Edward Tasker, Caitlin Williams, Adam C. Parslow, Robert J. Bryson-Richardson and Jonathan M. Keith

    BMC Genomics 2017 18:259

    Published on: 27 March 2017

  5. Research article

    RNA-Seq transcriptomics and pathway analyses reveal potential regulatory genes and molecular mechanisms in high- and low-residual feed intake in Nordic dairy cattle

    The selective breeding of cattle with high-feed efficiencies (FE) is an important goal of beef and dairy cattle producers. Global gene expression patterns in relevant tissues can be used to study the functions...

    M. S. Salleh, G. Mazzoni, J. K. Höglund, D. W. Olijhoek, P. Lund, P. Løvendahl and H. N. Kadarmideen

    BMC Genomics 2017 18:258

    Published on: 24 March 2017

  6. Erratum

    Erratum to: Unity in defence: honeybee workers exhibit conserved molecular responses to diverse pathogens

    Vincent Doublet, Yvonne Poeschl, Andreas Gogol-Döring, Cédric Alaux, Desiderato Annoscia, Christian Aurori, Seth M. Barribeau, Oscar C. Bedoya-Reina, Mark J. F. Brown, James C. Bull, Michelle L. Flenniken, David A. Galbraith, Elke Genersch, Sebastian Gisder, Ivo Grosse, Holly L. Holt…

    BMC Genomics 2017 18:256

    Published on: 23 March 2017

    The original article was published in BMC Genomics 2017 18:207

  7. Research article

    Uncovering SNP and indel variations of tetraploid cottons by SLAF-seq

    Cotton (Gossypium spp.), as the world’s most utilized textile fibre source, is an important, economically valuable crop worldwide. Understanding the genomic variation of tetraploid cotton species is important for...

    Chao Shen, Xin Jin, De Zhu and Zhongxu Lin

    BMC Genomics 2017 18:247

    Published on: 23 March 2017

  8. Research article

    Population diversity of the genetically determined TTR expression in human tissues and its implications in TTR amyloidosis

    Transthyretin (TTR) amyloidosis is a hereditary disease with a complex genotype-phenotype correlation. We conducted a literature survey to define the clinical landscape of TTR amyloidosis across populations wo...

    Andrea Iorio, Flavio De Angelis, Marco Di Girolamo, Marco Luigetti, Luca G. Pradotto, Anna Mazzeo, Sabrina Frusconi, Filomena My, Dario Manfellotto, Maria Fuciarelli and Renato Polimanti

    BMC Genomics 2017 18:254

    Published on: 23 March 2017

  9. Research article

    Widespread promoter methylation of synaptic plasticity genes in long-term potentiation in the adult brain in vivo

    DNA methylation is a key modulator of gene expression in mammalian development and cellular differentiation, including neurons. To date, the role of DNA modifications in long-term potentiation (LTP) has not be...

    Jesper L. V. Maag, Dominik C. Kaczorowski, Debabrata Panja, Timothy J. Peters, Clive R. Bramham, Karin Wibrand and Marcel E. Dinger

    BMC Genomics 2017 18:250

    Published on: 23 March 2017

  10. Research article

    Highly diverse population of Picornaviridae and other members of the Picornavirales, in Cameroonian fruit bats

    The order Picornavirales represents a diverse group of positive-stranded RNA viruses with small non-enveloped icosahedral virions. Recently, bats have been identified as an important reservoir of several highly p...

    Claude Kwe Yinda, Roland Zell, Ward Deboutte, Mark Zeller, Nádia Conceição-Neto, Elisabeth Heylen, Piet Maes, Nick J. Knowles, Stephen Mbigha Ghogomu, Marc Van Ranst and Jelle Matthijnssens

    BMC Genomics 2017 18:249

    Published on: 23 March 2017

  11. Research article

    Analysis of hepatic transcript profile and plasma lipid profile in early lactating dairy cows fed grape seed and grape marc meal extract

    It was recently reported that dairy cows fed a polyphenol-rich grape seed and grape marc meal extract (GSGME) during the transition period had an increased milk yield, but the underlying reasons remained uncle...

    Denise K. Gessner, Anne Winkler, Christian Koch, Georg Dusel, Gerhard Liebisch, Robert Ringseis and Klaus Eder

    BMC Genomics 2017 18:253

    Published on: 23 March 2017

  12. Research article

    Genome-wide expression profiling in leaves and roots of date palm (Phoenix dactylifera L.) exposed to salinity

    Date palm, as one of the most important fruit crops in North African and West Asian countries including Oman, is facing serious growth problems due to salinity, arising from persistent use of saline water for ...

    Mahmoud W. Yaish, Himanshu V. Patankar, Dekoum V. M. Assaha, Yun Zheng, Rashid Al-Yahyai and Ramanjulu Sunkar

    BMC Genomics 2017 18:246

    Published on: 22 March 2017

  13. Research article

    A transcriptome multi-tissue analysis identifies biological pathways and genes associated with variations in feed efficiency of growing pigs

    Animal’s efficiency in converting feed into lean gain is a critical issue for the profitability of meat industries. This study aimed to describe shared and specific molecular responses in different tissues of ...

    Florence Gondret, Annie Vincent, Magalie Houée-Bigot, Anne Siegel, Sandrine Lagarrigue, David Causeur, Hélène Gilbert and Isabelle Louveau

    BMC Genomics 2017 18:244

    Published on: 21 March 2017

  14. Research article

    Interferon signaling in ascites-associated macrophages is linked to a favorable clinical outcome in a subgroup of ovarian carcinoma patients

    Although tumor-associated macrophages (TAMs) are essential for cancer progression, connections between different clinical outcomes and transcriptional networks have not been reported. We have addressed this is...

    Till Adhikary, Annika Wortmann, Florian Finkernagel, Sonja Lieber, Andrea Nist, Thorsten Stiewe, Uwe Wagner, Sabine Müller-Brüsselbach, Silke Reinartz and Rolf Müller

    BMC Genomics 2017 18:243

    Published on: 21 March 2017

  15. Research article

    Exploring the nature of prediagnostic blood transcriptome markers of chronic lymphocytic leukemia by assessing their overlap with the transcriptome at the clinical stage

    We recently identified 700 genes whose expression levels were predictive of chronic lymphocytic leukemia (CLL) in a genome-wide gene expression analysis of prediagnostic blood from future cases and matched con...

    Jelle Vlaanderen, Max Leenders, Marc Chadeau-Hyam, Lützen Portengen, Soterios A. Kyrtopoulos, Ingvar A. Bergdahl, Ann-Sofie Johansson, Dennie D.G.A.J. Hebels, Theo M.C.M. de Kok, Paolo Vineis and Roel C.H. Vermeulen

    BMC Genomics 2017 18:239

    Published on: 20 March 2017

  16. Research article

    Quorum sensing of Streptococcus mutans is activated by Aggregatibacter actinomycetemcomitans and by the periodontal microbiome

    The oral cavity is inhabited by complex microbial communities forming biofilms that can cause caries and periodontitis. Cell-cell communication might play an important role in modulating the physiologies of in...

    Szymon P. Szafrański, Zhi-Luo Deng, Jürgen Tomasch, Michael Jarek, Sabin Bhuju, Manfred Rohde, Helena Sztajer and Irene Wagner-Döbler

    BMC Genomics 2017 18:238

    Published on: 20 March 2017

  17. Research article

    Perturbation of microbiota in one-day old broiler chickens with antibiotic for 24 hours negatively affects intestinal immune development

    Gut microbial colonization and development of immune competence are intertwined and are influenced by early-life nutritional, environmental, and management factors. Perturbation of the gut microbiome at young ...

    Dirkjan Schokker, Alfons J. M. Jansman, Gosse Veninga, Naomi de Bruin, Stephanie A. Vastenhouw, Freddy M. de Bree, Alex Bossers, Johanna M. J. Rebel and Mari A. Smits

    BMC Genomics 2017 18:241

    Published on: 20 March 2017

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