Skip to main content

Articles

Page 234 of 334

  1. Gene duplication, followed by functional evolution of duplicate genes, is a primary engine of evolutionary innovation. In turn, gene expression evolution is a critical component of overall functional evolution...

    Authors: Jia Zeng and Sridhar Hannenhalli
    Citation: BMC Genomics 2013 14(Suppl 1):S15
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  2. One challenge in applying bioinformatic tools to clinical or biological data is high number of features that might be provided to the learning algorithm without any prior knowledge on which ones should be used...

    Authors: Habil Zare, Gholamreza Haffari, Arvind Gupta and Ryan R Brinkman
    Citation: BMC Genomics 2013 14(Suppl 1):S14
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  3. With the introduction of next-generation sequencing (NGS) technologies, we are facing an exponential increase in the amount of genomic sequence data. The success of all medical and genetic applications of next...

    Authors: Hongyi Xin, Donghyuk Lee, Farhad Hormozdiari, Samihan Yedkar, Onur Mutlu and Can Alkan
    Citation: BMC Genomics 2013 14(Suppl 1):S13
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  4. Structural variations in human genomes, such as deletions, play an important role in cancer development. Next-Generation Sequencing technologies have been central in providing ways to detect such variations. M...

    Authors: Roland Wittler
    Citation: BMC Genomics 2013 14(Suppl 1):S12
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

    The Erratum to this article has been published in BMC Genomics 2013 14:S16

  5. Identifying the genetic variants that contribute to disease susceptibilities is important both for developing methodologies and for studying complex diseases in molecular biology. It has been demonstrated that...

    Authors: Jiayin Wang, Zhongmeng Zhao, Zhi Cao, Aiyuan Yang and Jin Zhang
    Citation: BMC Genomics 2013 14(Suppl 1):S11
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  6. The cost of RNA-Seq has been decreasing over the last few years. Despite this, experiments with four or less biological replicates are still quite common. Estimating the variances of gene expression estimates ...

    Authors: Ellis Patrick, Michael Buckley, David Ming Lin and Yee Hwa Yang
    Citation: BMC Genomics 2013 14(Suppl 1):S9
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  7. Error correction of sequenced reads remains a difficult task, especially in single-cell sequencing projects with extremely non-uniform coverage. While existing error correction tools designed for standard (mul...

    Authors: Sergey I Nikolenko, Anton I Korobeynikov and Max A Alekseyev
    Citation: BMC Genomics 2013 14(Suppl 1):S7
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  8. Glycine max is an economically important crop and many different varieties of soybean exist around the world. The first draft sequences and gene models of G. max (domesticated soybean) as well as G. soja (wild so...

    Authors: Trupti Joshi, Babu Valliyodan, Jeng-Hung Wu, Suk-Ha Lee, Dong Xu and Henry T Nguyen
    Citation: BMC Genomics 2013 14(Suppl 1):S5
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  9. Pairwise comparison of time series data for both local and time-lagged relationships is a computationally challenging problem relevant to many fields of inquiry. The Local Similarity Analysis (LSA) statistic i...

    Authors: W Evan Durno, Niels W Hanson, Kishori M Konwar and Steven J Hallam
    Citation: BMC Genomics 2013 14(Suppl 1):S3
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  10. Genome-wide association studies (GWAS) have identified many common polymorphisms associated with complex traits. However, these associated common variants explain only a small fraction of the phenotypic varian...

    Authors: Quan Chen and Fengzhu Sun
    Citation: BMC Genomics 2013 14(Suppl 1):S1
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 14 Supplement 1

  11. Though India has sequenced water buffalo genome but its draft assembly is based on cattle genome BTau 4.0, thus de novo chromosome wise assembly is a major pending issue for global community. The existing radiati...

    Authors: Sarika, Vasu Arora, Mir Asif Iquebal, Anil Rai and Dinesh Kumar
    Citation: BMC Genomics 2013 14:43
    Content type: Database Published on:

  12. MicroRNAs (miRNAs) are a family of ~22 nucleotide small RNA molecules that regulate gene expression by fully or partially binding to their complementary sequences. Recently, a large number of miRNAs and their ...

    Authors: Jiajie Sun, Mijie Li, Zhuanjian Li, Jing Xue, Xianyong Lan, Chunlei Zhang, Chuzhao Lei and Hong Chen
    Citation: BMC Genomics 2013 14:42
    Content type: Research article Published on:

  13. Plants such as grapevine (Vitis spp.) display significant inter-cultivar genetic and phenotypic variation. The genetic components underlying phenotypic diversity in grapevine must be understood in order to dis...

    Authors: Luca Venturini, Alberto Ferrarini, Sara Zenoni, Giovanni Battista Tornielli, Marianna Fasoli, Silvia Dal Santo, Andrea Minio, Genny Buson, Paola Tononi, Elisa Debora Zago, Gianpiero Zamperin, Diana Bellin, Mario Pezzotti and Massimo Delledonne
    Citation: BMC Genomics 2013 14:41
    Content type: Research article Published on:

  14. The outer cell wall of the pollen grain (exine) is an extremely resistant structure containing sporopollenin, a mixed polymer made up of fatty acids and phenolic compounds. The synthesis of sporopollenin in th...

    Authors: Gabino Ríos, Francisco R Tadeo, Carmen Leida and María L Badenes
    Citation: BMC Genomics 2013 14:40
    Content type: Research article Published on:

  15. The C. elegans cell fate map, in which the lineage of its approximately 1000 cells is visibly charted beginning from the zygote, represents a developmental biology milestone. Nematode development is invariant fro...

    Authors: Wenyu Zhou, Yunbing Tan, Donovan J Anderson, Eva M Crist, Hannele Ruohola-Baker, Stephen J Salipante and Marshall S Horwitz
    Citation: BMC Genomics 2013 14:39
    Content type: Research article Published on:

  16. Translational and post-translational protein modifications play a key role in the response of plants to pathogen infection. Among the latter, phosphorylation is critical in modulating protein structure, locali...

    Authors: Paolo Margaria, Simona Abbà and Sabrina Palmano
    Citation: BMC Genomics 2013 14:38
    Content type: Research article Published on:

  18. The most important disease of dairy cattle is mastitis, caused by the infection of the mammary gland by various micro-organisms. Although the transcriptional response of bovine mammary gland cells to in vitro inf...

    Authors: Kirsty Jensen, Juliane Günther, Richard Talbot, Wolfram Petzl, Holm Zerbe, Hans-Joachim Schuberth, Hans-Martin Seyfert and Elizabeth J Glass
    Citation: BMC Genomics 2013 14:36
    Content type: Research article Published on:

  19. Proteomics Signature Profiling (PSP) is a novel hit-rate based method that proved useful in resolving consistency and coverage issues in proteomics. As a follow-up study, several points need to be addressed: 1...

    Authors: Wilson Wen Bin Goh, Mengyuan Fan, Hong Sang Low, Marek Sergot and Limsoon Wong
    Citation: BMC Genomics 2013 14:35
    Content type: Research article Published on:

  20. MicroRNAs (miRNAs) regulate gene expression via mRNA cleavage or translation inhibition. In spite of barley being a cereal of great economic importance, very little data is available concerning its miRNA bioge...

    Authors: Katarzyna Kruszka, Andrzej Pacak, Aleksandra Swida-Barteczka, Agnieszka K Stefaniak, Elzbieta Kaja, Izabela Sierocka, Wojciech Karlowski, Artur Jarmolowski and Zofia Szweykowska-Kulinska
    Citation: BMC Genomics 2013 14:34
    Content type: Research article Published on:

  21. Comparative genomics brings insight into sequence evolution, but even more may be learned by coupling sequence analyses with experimental tests of gene function and regulation. However, the reliability of such...

    Authors: Yuanfang Guan, Maitreya J Dunham, Olga G Troyanskaya and Amy A Caudy
    Citation: BMC Genomics 2013 14:33
    Content type: Research article Published on:

  22. The construction of linkage maps is a first step in exploring the genetic basis for adaptive phenotypic divergence in closely related species by quantitative trait locus (QTL) analysis. Linkage maps are also u...

    Authors: Ryo Kakioka, Tomoyuki Kokita, Hiroki Kumada, Katsutoshi Watanabe and Noboru Okuda
    Citation: BMC Genomics 2013 14:32
    Content type: Research article Published on:

  23. Microarray technology is widely utilized for monitoring the expression changes of thousands of genes simultaneously. However, the requirement of relatively large amount of RNA for labeling and hybridization ma...

    Authors: Fugui Wang, Rui Chen, Dong Ji, Shunong Bai, Minping Qian and Minghua Deng
    Citation: BMC Genomics 2013 14:31
    Content type: Research article Published on:

  24. Rubber tree (Hevea brasiliensis) laticifers are the source of natural rubber. Rubber production depends on endogenous and exogenous ethylene (ethephon). AP2/ERF transcription factors, and especially Ethylene-Resp...

    Authors: Cuifang Duan, Xavier Argout, Virginie Gébelin, Marilyne Summo, Jean-François Dufayard, Julie Leclercq, Kuswanhadi, Piyanuch Piyatrakul, Julien Pirrello, Maryannick Rio, Antony Champion and Pascal Montoro
    Citation: BMC Genomics 2013 14:30
    Content type: Research article Published on:

  25. Reaumuria trigyna is an endangered small shrub endemic to desert regions in Inner Mongolia. This dicotyledonous recretohalophyte has unique morphological characteristics that allow it to tolerate the stress impos...

    Authors: Zhen-hua Dang, Lin-lin Zheng, Jia Wang, Zhe Gao, Shu-biao Wu, Zhi Qi and Ying-chun Wang
    Citation: BMC Genomics 2013 14:29
    Content type: Research article Published on:

  26. Red colour in kiwifruit results from the presence of anthocyanin pigments. Their expression, however, is complex, and varies among genotypes, species, tissues and environments. An understanding of the biosynth...

    Authors: Lena G Fraser, Alan G Seal, Mirco Montefiori, Tony K McGhie, Gianna K Tsang, Paul M Datson, Elena Hilario, Hinga E Marsh, Juanita K Dunn, Roger P Hellens, Kevin M Davies, Mark A McNeilage, H Nihal De Silva and Andrew C Allan
    Citation: BMC Genomics 2013 14:28
    Content type: Research article Published on:

  27. Huanglongbing (HLB) is arguably the most destructive disease for the citrus industry. HLB is caused by infection of the bacterium, Candidatus Liberibacter spp. Several citrus GeneChip studies have revealed thousa...

    Authors: Zhi-Liang Zheng and Yihong Zhao
    Citation: BMC Genomics 2013 14:27
    Content type: Research article Published on:

  28. The fertile and sterile plants were derived from the self-pollinated offspring of the F1 hybrid between the novel restorer line NR1 and the Nsa CMS line in Brassica napus. To elucidate gene expression and regulat...

    Authors: Xiaohong Yan, Caihua Dong, Jingyin Yu, Wanghui Liu, Chenghong Jiang, Jia Liu, Qiong Hu, Xiaoping Fang and Wenhui Wei
    Citation: BMC Genomics 2013 14:26
    Content type: Research article Published on:

  29. Both large deletions in genome and heat shock stress would lead to alterations in the gene expression profile; however, whether there is any potential linkage between these disturbances to the transcriptome ha...

    Authors: Bei-Wen Ying, Shigeto Seno, Fuyuro Kaneko, Hideo Matsuda and Tetsuya Yomo
    Citation: BMC Genomics 2013 14:25
    Content type: Research article Published on:

  30. Salinity inhibits growth and development of most plants. The response to salinity is complex and varies between plant organs and stages of development. It involves challenges of ion toxicities and deficiencies...

    Authors: Michael Kravchik and Nirit Bernstein
    Citation: BMC Genomics 2013 14:24
    Content type: Research article Published on:

  31. Apoptosis is a critical process in endothelial cell (EC) biology and pathology, which has been extensively studied at protein level. Numerous gene expression studies of EC apoptosis have also been performed, h...

    Authors: Muna Affara, Debbie Sanders, Hiromitsu Araki, Yoshinori Tamada, Benjamin J Dunmore, Sally Humphreys, Seiya Imoto, Christopher Savoie, Satoru Miyano, Satoru Kuhara, David Jeffries, Cristin Print and D Stephen Charnock-Jones
    Citation: BMC Genomics 2013 14:23
    Content type: Research article Published on:

  32. The genus Spiroplasma contains a group of helical, motile, and wall-less bacteria in the class Mollicutes. Similar to other members of this class, such as the animal-pathogenic Mycoplasma and the plant-pathogenic...

    Authors: Wen-Sui Lo, Ling-Ling Chen, Wan-Chia Chung, Gail E Gasparich and Chih-Horng Kuo
    Citation: BMC Genomics 2013 14:22
    Content type: Research article Published on:

  33. The genome of Fusarium graminearum has been sequenced and annotated previously, but correct gene annotation remains a challenge. In addition, posttranscriptional regulations, such as alternative splicing and RNA ...

    Authors: Chunzhao Zhao, Cees Waalwijk, Pierre J G M de Wit, Dingzhong Tang and Theo van der Lee
    Citation: BMC Genomics 2013 14:21
    Content type: Research article Published on:

  34. The endosymbiont Wolbachia pipientis causes diverse and sometimes dramatic phenotypes in its invertebrate hosts. Four Wolbachia strains sequenced to date indicate that the constitution of the genome is dynamic, b...

    Authors: Anne Duplouy, Iñaki Iturbe-Ormaetxe, Scott A Beatson, Jan M Szubert, Jeremy C Brownlie, Conor J McMeniman, Elizabeth A McGraw, Gregory D D Hurst, Sylvain Charlat, Scott L O’Neill and Megan Woolfit
    Citation: BMC Genomics 2013 14:20
    Content type: Research article Published on:

  35. Heterosis is a phenomenon in which hybrids exhibit superior performance relative to parental phenotypes. In addition to the heterosis of above-ground agronomic traits on which most existing studies have focuse...

    Authors: Rongrong Zhai, Yue Feng, Huimin Wang, Xiaodeng Zhan, Xihong Shen, Weiming Wu, Yingxin Zhang, Daibo Chen, Gaoxing Dai, Zhanlie Yang, Liyong Cao and Shihua Cheng
    Citation: BMC Genomics 2013 14:19
    Content type: Research article Published on:

  36. Biological scientists have long sought after understanding how genes and their structural/functional changes contribute to morphological diversity. Though both grain (BT×623) and sweet (Keller) sorghum lines o...

    Authors: Shu-Ye Jiang, Zhigang Ma, Jeevanandam Vanitha and Srinivasan Ramachandran
    Citation: BMC Genomics 2013 14:18
    Content type: Research article Published on:

  37. Brachiaria ruziziensis is one of the most important forage species planted in the tropics. The application of genomic tools to aid the selection of superior genotypes can provide support to B. ruziziensis breedin...

    Authors: Pedro IT Silva, Alexandre M Martins, Ediene G Gouvea, Marco Pessoa-Filho and Márcio E Ferreira
    Citation: BMC Genomics 2013 14:17
    Content type: Research article Published on:

  38. This study is aimed at the analysis of genetic and physiological effects of myostatin on economically relevant meat quality traits in a genetic background of high muscularity. For this purpose, we generated G3 po...

    Authors: Stefan Kärst, Eva M Strucken, Armin O Schmitt, Alexandra Weyrich, Fernando PM de Villena, Hyuna Yang and Gudrun A Brockmann
    Citation: BMC Genomics 2013 14:16
    Content type: Research article Published on:

  40. New sequencing technologies have tremendously increased the number of known molecular markers (single nucleotide polymorphisms; SNPs) in a variety of species. Concurrently, improvements to genotyping technolog...

    Authors: Mikhail Ozerov, Anti Vasemägi, Vidar Wennevik, Eero Niemelä, Sergey Prusov, Matthew Kent and Juha-Pekka Vähä
    Citation: BMC Genomics 2013 14:12
    Content type: Methodology article Published on:

  41. A reciprocal recurrent selection program has been under way for the Coffea canephora coffee tree for approximately thirty years in the Ivory Coast. Association genetics would help to speed up this program by more...

    Authors: Philippe Cubry, Fabien de Bellis, Komlan Avia, Sophie Bouchet, David Pot, Magali Dufour, Hyacinthe Legnate and Thierry Leroy
    Citation: BMC Genomics 2013 14:10
    Content type: Research article Published on:

  42. Regulatory network of cytoplasmic male sterility (CMS) occurrence is still largely unknown in plants, although numerous researches have been attempted to isolate genes involved in CMS. Here, we employed high-t...

    Authors: Jinghua Yang, Xunyan Liu, Baochen Xu, Na Zhao, Xiaodong Yang and Mingfang Zhang
    Citation: BMC Genomics 2013 14:9
    Content type: Research article Published on:

  43. Subtelomeric multigene families of malaria parasites encode virulent determinants. The published genome sequence of Plasmodium vivax revealed the largest subtelomeric multigene family of human malaria parasites, ...

    Authors: Francisco Javier Lopez, Maria Bernabeu, Carmen Fernandez-Becerra and Hernando A del Portillo
    Citation: BMC Genomics 2013 14:8
    Content type: Research article Published on:

  44. Sequencing technologies have different biases, in single-genome sequencing and metagenomic sequencing; these can significantly affect ORFs recovery and the population distribution of a metagenome. In this pape...

    Authors: Fabio Gori, Susannah G Tringe, Gianluigi Folino, Sacha AFT van Hijum, Huub JM Op den Camp, Mike SM Jetten and Elena Marchiori
    Citation: BMC Genomics 2013 14:7
    Content type: Research article Published on:

  45. The ATP-binding cassette (ABC) transporters belong to a large superfamily of proteins that have important physiological functions in all living organisms. Most are integral membrane proteins that transport a b...

    Authors: Gunnar Broehan, Tobias Kroeger, Marcé Lorenzen and Hans Merzendorfer
    Citation: BMC Genomics 2013 14:6
    Content type: Research article Published on:

  47. Cytokine-activated transcription factors from the STAT (Signal Transducers and Activators of Transcription) family control common and context-specific genetic programs. It is not clear to what extent cell-spec...

    Authors: Keunsoo Kang, Gertraud W Robinson and Lothar Hennighausen
    Citation: BMC Genomics 2013 14:4
    Content type: Research article Published on:

  48. Water and nitrogen are two of the most critical inputs required to achieve the high yield potential of modern corn varieties. Under most agricultural settings however they are often scarce and costly. Fortunat...

    Authors: Sabrina Humbert, Sanjeena Subedi, Jonathan Cohn, Bin Zeng, Yong-Mei Bi, Xi Chen, Tong Zhu, Paul D McNicholas and Steven J Rothstein
    Citation: BMC Genomics 2013 14:3
    Content type: Research article Published on:

  49. Rapid development of highly saturated genetic maps aids molecular breeding, which can accelerate gain per breeding cycle in woody perennial plants such as Rubus idaeus (red raspberry). Recently, robust genotyping...

    Authors: Judson A Ward, Jasbir Bhangoo, Felicidad Fernández-Fernández, Patrick Moore, JD Swanson, Roberto Viola, Riccardo Velasco, Nahla Bassil, Courtney A Weber and Daniel J Sargent
    Citation: BMC Genomics 2013 14:2
    Content type: Research article Published on:

  50. Human blood platelets are essential to maintaining normal hemostasis, and platelet dysfunction often causes bleeding or thrombosis. Estimates of genome-wide platelet RNA expression using microarrays have provi...

    Authors: Paul F Bray, Steven E McKenzie, Leonard C Edelstein, Srikanth Nagalla, Kathleen Delgrosso, Adam Ertel, Joan Kupper, Yi Jing, Eric Londin, Phillipe Loher, Huang-Wen Chen, Paolo Fortina and Isidore Rigoutsos
    Citation: BMC Genomics 2013 14:1
    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