Skip to main content

Articles

Page 247 of 332

  1. Miniature inverted repeat transposable element (MITE) is one type of transposable element (TE), which is largely found in eukaryotic genomes and involved in a wide variety of biological events. However, only f...

    Authors: Hai-Tao Dong, Lu Zhang, Kang-Le Zheng, Hai-Gen Yao, Jack Chen, Feng-Chi Yu, Xiao-Xing Yu, Bi-Zeng Mao, Dong Zhao, Jian Yao and De-Bao Li
    Citation: BMC Genomics 2012 13:135
    Content type: Research article Published on:

  2. Massively parallel transcriptome sequencing (RNA-Seq) is becoming the method of choice for studying functional effects of genetic variability and establishing causal relationships between genetic variants and ...

    Authors: Jorge Duitama, Pramod K Srivastava and Ion I Măndoiu
    Citation: BMC Genomics 2012 13(Suppl 2):S6
    Content type: Research Published on:

    This article is part of a Supplement: Volume 13 Supplement 2

  3. Transmembrane β-barrel proteins are a special class of transmembrane proteins which play several key roles in human body and diseases. Due to experimental difficulties, the number of transmembrane β-barrel protei...

    Authors: Van Du T Tran, Philippe Chassignet, Saad Sheikh and Jean-Marc Steyaert
    Citation: BMC Genomics 2012 13(Suppl 2):S5
    Content type: Research Published on:

    This article is part of a Supplement: Volume 13 Supplement 2

  4. Assembling haplotypes given sequence data derived from a single individual is a well studied problem, but only recently has haplotype assembly been considered for population-sampled data. We discuss a software...

    Authors: Shawn T O'Neil and Scott J Emrich
    Citation: BMC Genomics 2012 13(Suppl 2):S4
    Content type: Research Published on:

    This article is part of a Supplement: Volume 13 Supplement 2

  5. Many important biological problems can be modeled as contagion diffusion processes over interaction networks. This article shows how the EpiSimdemics interaction-based simulation system can be applied to the g...

    Authors: Keith R Bisset, Ashwin M Aji, Madhav V Marathe and Wu-chun Feng
    Citation: BMC Genomics 2012 13(Suppl 2):S3
    Content type: Research Published on:

    This article is part of a Supplement: Volume 13 Supplement 2

  6. Microarray experiments often measure expressions of genes taken from sample tissues in the presence of external perturbations such as medication, radiation, or disease. The external perturbation can change the...

    Authors: Nirmalya Bandyopadhyay, Manas Somaiya, Sanjay Ranka and Tamer Kahveci
    Citation: BMC Genomics 2012 13(Suppl 2):S2
    Content type: Research Published on:

    This article is part of a Supplement: Volume 13 Supplement 2

  7. During alternative splicing, the inclusion of an exon in the final mRNA molecule is determined by nuclear proteins that bind cis-regulatory sequences in a target pre-mRNA molecule. A recent study suggested tha...

    Authors: Patricia Buendia, John Tyree, Robert Loredo and Shu-Ning Hsu
    Citation: BMC Genomics 2012 13(Suppl 2):S1
    Content type: Research Published on:

    This article is part of a Supplement: Volume 13 Supplement 2

  8. MANF and CDNF are evolutionarily conserved neurotrophic factors that specifically support dopaminergic neurons. To date, the receptors and signalling pathways of this novel MANF/CDNF family have remained unkno...

    Authors: Mari Palgi, Dario Greco, Riitta Lindström, Petri Auvinen and Tapio I Heino
    Citation: BMC Genomics 2012 13:134
    Content type: Research article Published on:

  9. Aegilops variabilis No.1 is highly resistant to cereal cyst nematode (CCN). However, a lack of genomic information has restricted studies on CCN resistance genes in Ae. variabilis and has limited genetic applicat...

    Authors: De-Lin Xu, Hai Long, Jun-Jun Liang, Jie Zhang, Xin Chen, Jing-Liang Li, Zhi-Fen Pan, Guang-Bing Deng and Mao-Qun Yu
    Citation: BMC Genomics 2012 13:133
    Content type: Research article Published on:

  10. MicroRNAs (miRNAs) play key roles in diverse developmental processes, nutrient homeostasis and responses to biotic and abiotic stresses. The biogenesis and regulatory functions of miRNAs have been intensively ...

    Authors: Li-Chuan Wan, Haiyan Zhang, Shanfa Lu, Liang Zhang, Zongbo Qiu, Yuanyuan Zhao, Qing-Yin Zeng and Jinxing Lin
    Citation: BMC Genomics 2012 13:132
    Content type: Research article Published on:

  11. The procedural aspects of genome sequencing and assembly have become relatively inexpensive, yet the full, accurate structural annotation of these genomes remains a challenge. Next-generation sequencing transc...

    Authors: Elena S Peterson, Lee Ann McCue, Alexandra C Schrimpe-Rutledge, Jeffrey L Jensen, Hyunjoo Walker, Markus A Kobold, Samantha R Webb, Samuel H Payne, Charles Ansong, Joshua N Adkins, William R Cannon and Bobbie-Jo M Webb-Robertson
    Citation: BMC Genomics 2012 13:131
    Content type: Software Published on:

  12. The salmon louse is an ectoparasitic copepod that causes major economic losses in the aquaculture industry of Atlantic salmon. This host displays a high level of susceptibility to lice which can be accounted f...

    Authors: Aleksei Krasnov, Stanko Skugor, Marijana Todorcevic, Kevin A Glover and Frank Nilsen
    Citation: BMC Genomics 2012 13:130
    Content type: Research article Published on:

  13. Rosaceae include numerous economically important and morphologically diverse species. Comparative mapping between the member species in Rosaceae have indicated some level of synteny. Recently the whole genome ...

    Authors: Sook Jung, Alessandro Cestaro, Michela Troggio, Dorrie Main, Ping Zheng, Ilhyung Cho, Kevin M Folta, Bryon Sosinski, Albert Abbott, Jean-Marc Celton, Pere Arús, Vladimir Shulaev, Ignazio Verde, Michele Morgante, Daniel Rokhsar, Riccardo Velasco…
    Citation: BMC Genomics 2012 13:129
    Content type: Research article Published on:

  14. Mutans streptococci are a group of gram-positive bacteria including the primary cariogenic dental pathogen Streptococcus mutans and closely related species. Two component systems (TCSs) composed of a signal sensi...

    Authors: Lifu Song, Padhmanand Sudhakar, Wei Wang, Georg Conrads, Anke Brock, Jibin Sun, Irene Wagner-Döbler and An-Ping Zeng
    Citation: BMC Genomics 2012 13:128
    Content type: Research article Published on:

  15. Light represents an important environmental cue, which exerts considerable influence on the metabolism of fungi. Studies with the biotechnological fungal workhorse Trichoderma reesei (Hypocrea jecorina) have reve...

    Authors: Monika Schmoll, Chaoguang Tian, Jianping Sun, Doris Tisch and N Louise Glass
    Citation: BMC Genomics 2012 13:127
    Content type: Research article Published on:

  16. Picrorhiza kurrooa Royle ex Benth. is an endangered plant species of medicinal importance. The medicinal property is attributed to monoterpenoids picroside I and II, which are modulated by temperature. The transc...

    Authors: Parul Gahlan, Heikham Russiachand Singh, Ravi Shankar, Niharika Sharma, Anita Kumari, Vandna Chawla, Paramvir Singh Ahuja and Sanjay Kumar
    Citation: BMC Genomics 2012 13:126
    Content type: Research article Published on:

  17. The pir genes comprise the largest multi-gene family in Plasmodium, with members found in P. vivax, P. knowlesi and the rodent malaria species. Despite comprising up to 5% of the genome, little is known about the...

    Authors: Jennifer Lawton, Thibaut Brugat, Yam Xue Yan, Adam James Reid, Ulrike Böhme, Thomas Dan Otto, Arnab Pain, Andrew Jackson, Matthew Berriman, Deirdre Cunningham, Peter Preiser and Jean Langhorne
    Citation: BMC Genomics 2012 13:125
    Content type: Research article Published on:

  18. The degree of conservation of gene expression between homologous organs largely remains an open question. Several recent studies reported some evidence in favor of such conservation. Most studies compute organ...

    Authors: Barbara Piasecka, Zoltán Kutalik, Julien Roux, Sven Bergmann and Marc Robinson-Rechavi
    Citation: BMC Genomics 2012 13:124
    Content type: Research article Published on:

  20. MicroRNA (miRNA) is a class of functional non-coding small RNA with 19-25 nucleotides in length while Amur grape (Vitis amurensis Rupr.) is an important wild fruit crop with the strongest cold resistance among th...

    Authors: Chen Wang, Jian Han, Chonghuai Liu, Korir Nicholas Kibet, Emrul Kayesh, Lingfei Shangguan, Xiaoying Li and Jinggui Fang
    Citation: BMC Genomics 2012 13:122
    Content type: Research article Published on:

  21. Bovine leukemia virus (BLV) is associated with enzootic bovine leukosis and is closely related to human T-cell leukemia virus type I. The Tax protein of BLV is a transcriptional activator of viral replication ...

    Authors: Mariluz Arainga, Eri Takeda and Yoko Aida
    Citation: BMC Genomics 2012 13:121
    Content type: Research article Published on:

  22. The sequence of the pathogen Mycobacterium tuberculosis (Mtb) strain H37Rv has been available for over a decade, but the biology of the pathogen remains poorly understood. Genome sequences from other Mtb strains ...

    Authors: Abigail Manson McGuire, Brian Weiner, Sang Tae Park, Ilan Wapinski, Sahadevan Raman, Gregory Dolganov, Matthew Peterson, Robert Riley, Jeremy Zucker, Thomas Abeel, Jared White, Peter Sisk, Christian Stolte, Mike Koehrsen, Robert T Yamamoto, Milena Iacobelli-Martinez…
    Citation: BMC Genomics 2012 13:120
    Content type: Research article Published on:

  23. In the silkworm, Bombyx mori, femaleness is strongly controlled by the female-specific W chromosome. Originally, it was presumed that the W chromosome encodes female-determining gene(s), accordingly called Fem. H...

    Authors: Kahori Hara, Tsuguru Fujii, Yutaka Suzuki, Sumio Sugano, Toru Shimada, Susumu Katsuma and Shinpei Kawaoka
    Citation: BMC Genomics 2012 13:119
    Content type: Research article Published on:

  24. A valuable tool for both research and industry, in vitro fertilization (IVF) has applications range from gamete selection and preservation of traits to cloning. Although IVF has achieved worldwide use, with ap...

    Authors: Ashley M Driver, Francisco Peñagaricano, Wen Huang, Khawaja R Ahmad, Katie S Hackbart, Milo C Wiltbank and Hasan Khatib
    Citation: BMC Genomics 2012 13:118
    Content type: Research article Published on:

  25. Expression traits can vary quantitatively between individuals and have a complex inheritance. Identification of the genetics underlying transcript variation can help in the understanding of phenotypic variatio...

    Authors: Francisco A Cubillos, Jennifer Yansouni, Hamid Khalili, Sandrine Balzergue, Samira Elftieh, Marie-Laure Martin-Magniette, Yann Serrand, Loïc Lepiniec, Sébastien Baud, Bertrand Dubreucq, Jean-Pierre Renou, Christine Camilleri and Olivier Loudet
    Citation: BMC Genomics 2012 13:117
    Content type: Research article Published on:

  26. In addition to genome sequencing, accurate functional annotation of genomes is required in order to carry out comparative and evolutionary analyses between species. Among primates, the human genome is the most...

    Authors: Michael Dannemann, Birgit Nickel, Esther Lizano, Hernán A Burbano and Janet Kelso
    Citation: BMC Genomics 2012 13:116
    Content type: Research article Published on:

  27. The placenta is a key component in understanding the physiological processes involved in pregnancy. Characterizing genes critical for placental function can serve as a basis for identifying mechanisms underlyi...

    Authors: Jinsil Kim, Keyan Zhao, Peng Jiang, Zhi-xiang Lu, Jinkai Wang, Jeffrey C Murray and Yi Xing
    Citation: BMC Genomics 2012 13:115
    Content type: Research article Published on:

  28. This study describes how the complete mitogenome of a terrestrial snail, Cylindrus obtusus (Draparnaud, 1805) was sequenced without PCRs from a collection specimen that had been in 70% ethanol for 8 years. The mi...

    Authors: Dick SJ Groenenberg, Walter Pirovano, Edmund Gittenberger and Menno Schilthuizen
    Citation: BMC Genomics 2012 13:114
    Content type: Methodology article Published on:

  29. Knowledge of germplasm diversity and relationships among elite breeding materials is fundamentally important in crop improvement. We genotyped 450 maize inbred lines developed and/or widely used by CIMMYT bree...

    Authors: Kassa Semagn, Cosmos Magorokosho, Bindiganavile S Vivek, Dan Makumbi, Yoseph Beyene, Stephen Mugo, BM Prasanna and Marilyn L Warburton
    Citation: BMC Genomics 2012 13:113
    Content type: Research article Published on:

  30. Actinoplanes sp. SE50/110 is known as the wild type producer of the alpha-glucosidase inhibitor acarbose, a potent drug used worldwide in the treatment of type-2 diabetes mellitus. As the incidence of diabetes is...

    Authors: Patrick Schwientek, Rafael Szczepanowski, Christian Rückert, Jörn Kalinowski, Andreas Klein, Klaus Selber, Udo F Wehmeier, Jens Stoye and Alfred Pühler
    Citation: BMC Genomics 2012 13:112
    Content type: Research article Published on:

  31. Different Cupriavidus metallidurans strains isolated from metal-contaminated and other anthropogenic environments were genotypically and phenotypically compared with C. metallidurans type strain CH34. The latter ...

    Authors: Rob Van Houdt, Pieter Monsieurs, Kristel Mijnendonckx, Ann Provoost, Ann Janssen, Max Mergeay and Natalie Leys
    Citation: BMC Genomics 2012 13:111
    Content type: Research article Published on:

  32. Dickeya dadantii and Pectobacterium atrosepticum are phytopathogenic enterobacteria capable of facultative anaerobic growth in a wide range of O2 concentrations found in plant and natural environments. The transc...

    Authors: Lavanya Babujee, Jennifer Apodaca, Venkatesh Balakrishnan, Paul Liss, Patricia J Kiley, Amy O Charkowski, Jeremy D Glasner and Nicole T Perna
    Citation: BMC Genomics 2012 13:110
    Content type: Research article Published on:

  33. Drosophila albomicans is a unique model organism for studying both sex chromosome and B chromosome evolution. A pair of its autosomes comprising roughly 40% of the whole genome has fused to the ancient X and Y ch...

    Authors: Qi Zhou, Hong-mei Zhu, Quan-fei Huang, Li Zhao, Guo-jie Zhang, Scott W Roy, Beatriz Vicoso, Zhao-lin Xuan, Jue Ruan, Yue Zhang, Ruo-ping Zhao, Chen Ye, Xiu-qing Zhang, Jun Wang, Wen Wang and Doris Bachtrog
    Citation: BMC Genomics 2012 13:109
    Content type: Research article Published on:

  36. Drug resistance in the malaria parasite Plasmodium falciparum severely compromises the treatment and control of malaria. A knowledge of the critical mutations conferring resistance to particular drugs is importan...

    Authors: Katarzyna Kinga Modrzynska, Alison Creasey, Laurence Loewe, Timothee Cezard, Sofia Trindade Borges, Axel Martinelli, Louise Rodrigues, Pedro Cravo, Mark Blaxter, Richard Carter and Paul Hunt
    Citation: BMC Genomics 2012 13:106
    Content type: Research article Published on:

  37. Biological systems respond to changes in both the Earth's magnetic and gravitational fields, but as experiments in space are expensive and infrequent, Earth-based simulation techniques are required. A high gra...

    Authors: Ana I Manzano, Jack JWA van Loon, Peter CM Christianen, Juana M Gonzalez-Rubio, F Javier Medina and Raul Herranz
    Citation: BMC Genomics 2012 13:105
    Content type: Research article Published on:

  38. Field pea (Pisum sativum L.) and faba bean (Vicia faba L.) are cool-season grain legume species that provide rich sources of food for humans and fodder for livestock. To date, both species have been relative 'gen...

    Authors: Sukhjiwan Kaur, Luke W Pembleton, Noel OI Cogan, Keith W Savin, Tony Leonforte, Jeffrey Paull, Michael Materne and John W Forster
    Citation: BMC Genomics 2012 13:104
    Content type: Research article Published on:

  39. Coffee trees (Rubiaceae) and tomato (Solanaceae) belong to the Asterid clade, while grapevine (Vitaceae) belongs to the Rosid clade. Coffee and tomato separated from grapevine 125 million years ago, while coff...

    Authors: Romain Guyot, Florent Lefebvre-Pautigny, Christine Tranchant-Dubreuil, Michel Rigoreau, Perla Hamon, Thierry Leroy, Serge Hamon, Valérie Poncet, Dominique Crouzillat and Alexandre de Kochko
    Citation: BMC Genomics 2012 13:103
    Content type: Research article Published on:

  40. Clostridium beijerinckii is a prominent solvent-producing microbe that has great potential for biofuel and chemical industries. Although transcriptional analysis is essential to understand gene functions and regu...

    Authors: Yi Wang, Xiangzhen Li, Yuejian Mao and Hans P Blaschek
    Citation: BMC Genomics 2012 13:102
    Content type: Research article Published on:

  41. Plants react to iron deficiency stress adopting different kind of adaptive responses. Tomato, a Strategy I plant, improves iron uptake through acidification of rhizosphere, reduction of Fe3+ to Fe2+ and transport...

    Authors: Anita Zamboni, Laura Zanin, Nicola Tomasi, Mario Pezzotti, Roberto Pinton, Zeno Varanini and Stefano Cesco
    Citation: BMC Genomics 2012 13:101
    Content type: Research article Published on:

  43. Sugar beet (Beta vulgaris sp. vulgaris) crops account for about 30% of world sugar. Sugar yield is compromised by reproductive growth hence crops must remain vegetative until harvest. Prolonged exposure to cold t...

    Authors: Effie S Mutasa-Göttgens, Anagha Joshi, Helen F Holmes, Peter Hedden and Berthold Göttgens
    Citation: BMC Genomics 2012 13:99
    Content type: Research article Published on:

  44. Marmosets are playing an increasingly large and important role in biomedical research. They share genetic, anatomical, and physiological similarities with humans and other primate model species, but their smal...

    Authors: Carolyn G Sweeney, Elizabeth Curran, Susan V Westmoreland, Keith G Mansfield and Eric J Vallender
    Citation: BMC Genomics 2012 13:98
    Content type: Research article Published on:

  45. In Drosophila melanogaster, the dosage-compensation system that equalizes X-linked gene expression between males and females, thereby assuring that an appropriate balance is maintained between the expression of g...

    Authors: Philge Philip, Fredrik Pettersson and Per Stenberg
    Citation: BMC Genomics 2012 13:97
    Content type: Research article Published on:

  46. Common carp (Cyprinus carpio) is thought to have undergone one extra round of genome duplication compared to zebrafish. Transcriptome analysis has been used to study the existence and timing of genome duplication...

    Authors: Jin-Tu Wang, Jiong-Tang Li, Xiao-Feng Zhang and Xiao-Wen Sun
    Citation: BMC Genomics 2012 13:96
    Content type: Research article Published on:

  47. High-density linkage maps facilitate the mapping of target genes and the construction of partial linkage maps around target loci to develop markers for marker-assisted selection (MAS). MAS is quite challenging...

    Authors: Yoshinari Moriguchi, Tokuko Ujino-Ihara, Kentaro Uchiyama, Norihiro Futamura, Maki Saito, Saneyoshi Ueno, Asako Matsumoto, Naoki Tani, Hideaki Taira, Kenji Shinohara and Yoshihiko Tsumura
    Citation: BMC Genomics 2012 13:95
    Content type: Research article Published on:

  48. Genome-wide gene expression profiling and detailed physiological investigation were used for understanding the molecular mechanism and physiological response of Gossypium herbaceum, which governs the adaptability...

    Authors: Alok Ranjan, Deepti Nigam, Mehar H Asif, Ruchi Singh, Sanjay Ranjan, Shrikant Mantri, Neha Pandey, Ila Trivedi, Krishan Mohan Rai, Satya N Jena, Bhupendra Koul, Rakesh Tuli, Uday V Pathre and Samir V Sawant
    Citation: BMC Genomics 2012 13:94
    Content type: Research article Published on:

  49. In rodent models and in humans the impact of gestational diets on the offspring's phenotype was shown experimentally and epidemiologically. Adverse environmental conditions during fetal development provoke an ...

    Authors: Michael Oster, Eduard Murani, Cornelia C Metges, Siriluck Ponsuksili and Klaus Wimmers
    Citation: BMC Genomics 2012 13:93
    Content type: Research article Published on:

  50. Transcriptome analysis is increasingly being used to study the evolutionary origins and ecology of non-model plants. One issue for both transcriptome assembly and differential gene expression analyses is the c...

    Authors: Nicole Gruenheit, Oliver Deusch, Christian Esser, Matthias Becker, Claudia Voelckel and Peter Lockhart
    Citation: BMC Genomics 2012 13:92
    Content type: Research article Published on:

Featured videos

View featured videos from across the BMC-series journals

Submit manuscript

Annual Journal Metrics

  • 2022 Citation Impact
    4.4 - 2-year Impact Factor
    4.7 - 5-year Impact Factor
    1.189 - SNIP (Source Normalized Impact per Paper)
    1.107 - SJR (SCImago Journal Rank)

    2023 Speed
    23 days submission to first editorial decision for all manuscripts (Median)
    137 days submission to accept (Median)

    2023 Usage
    7,167,242 downloads
    4,454 Altmetric mentions

Follow

Sign up for article alerts and news from this journal

BMC Genomics

ISSN: 1471-2164

Contact us