Skip to main content

Articles

Page 252 of 332

  1. It has been shown that nearly a quarter of the initial predicted gene models in the Plasmodium falciparum genome contain errors. Although there have been efforts to obtain complete cDNA sequences to correct the e...

    Authors: María J López-Barragán, Jacob Lemieux, Mariam Quiñones, Kim C Williamson, Alvaro Molina-Cruz, Kairong Cui, Carolina Barillas-Mury, Keji Zhao and Xin-zhuan Su
    Citation: BMC Genomics 2011 12:587
    Content type: Research article Published on:

  2. Genome-wide disease-gene finding approaches may sometimes provide us with a long list of candidate genes. Since using pure experimental approaches to verify all candidates could be expensive, a number of netwo...

    Authors: Chia-Lang Hsu, Yen-Hua Huang, Chien-Ting Hsu and Ueng-Cheng Yang
    Citation: BMC Genomics 2011 12(Suppl 3):S25
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  3. Lung cancer is the leading cause of cancer deaths in the world. The most common type of lung cancer is lung adenocarcinoma (AC). The genetic mechanisms of the early stages and lung AC progression steps are poo...

    Authors: Swee Heng Toh, Philip Prathipati, Efthimios Motakis, Chee Keong Kwoh, Surya Pavan Yenamandra and Vladimir A Kuznetsov
    Citation: BMC Genomics 2011 12(Suppl 3):S24
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  4. Lysosomal β-D-mannosidase is a glycosyl hydrolase that breaks down the glycosidic bonds at the non-reducing end of N-linked glycoproteins. Hence, it is a crucial enzyme in polysaccharide degradation pathway. M...

    Authors: Thi Huynh, Javed Mohammed Khan and Shoba Ranganathan
    Citation: BMC Genomics 2011 12(Suppl 3):S22
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  5. M. tuberculosis is a formidable bacterial pathogen. There is thus an increasing demand on understanding the function and relationship of proteins in various strains of M. tuberculosis. Protein-protein interaction...

    Authors: Hufeng Zhou and Limsoon Wong
    Citation: BMC Genomics 2011 12(Suppl 3):S20
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  6. Gene co-expression, in the form of a correlation coefficient, has been valuable in the analysis, classification and prediction of protein-protein interactions. However, it is susceptible to bias from a few sam...

    Authors: Ashwini Patil, Kenta Nakai and Kengo Kinoshita
    Citation: BMC Genomics 2011 12(Suppl 3):S19
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  7. Exosomes are nanoscale membrane vesicles released by most cells. They are postulated to be involved in cell–cell communication and genetic reprogramming of their target cells. In addition to proteins and lipid...

    Authors: Arsen O Batagov, Vladimir A Kuznetsov and Igor V Kurochkin
    Citation: BMC Genomics 2011 12(Suppl 3):S18
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  8. Gene duplication provides resources for developing novel genes and new functions while retaining the original functions. In addition, alternative splicing could increase the complexity of expression at the tra...

    Authors: Ting-Wen Chen, Timothy H Wu, Wailap V Ng and Wen-Chang Lin
    Citation: BMC Genomics 2011 12(Suppl 3):S16
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  9. Excretory/secretory proteins (ESPs) play a major role in parasitic infection as they are present at the host-parasite interface and regulate host immune system. In case of parasitic helminths, transcriptomics ...

    Authors: Gagan Garg and Shoba Ranganathan
    Citation: BMC Genomics 2011 12(Suppl 3):S14
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  10. Lignin, after cellulose, is the second most abundant biopolymer accounting for approximately 15-35% of the dry weight of wood. As an important component during wood formation, lignin is indispensable for plant...

    Authors: Seong Siang Ong and Ratnam Wickneswari
    Citation: BMC Genomics 2011 12(Suppl 3):S13
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  11. Obtaining accurate estimates of microbial diversity using rDNA profiling is the first step in most metagenomics projects. Consequently, most metagenomic projects spend considerable amounts of time, money and m...

    Authors: Monzoorul Haque Mohammed, Tarini Shankar Ghosh, Sudha Chadaram and Sharmila S Mande
    Citation: BMC Genomics 2011 12(Suppl 3):S12
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  12. SNP (Single Nucleotide Polymorphism), the most common genetic variations between human beings, is believed to be a promising way towards personalized medicine. As more and more research on SNPs are being condu...

    Authors: Danny C C Poo, Shaojiang Cai and James T L Mah
    Citation: BMC Genomics 2011 12(Suppl 3):S9
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  13. With the advent of next-generation sequencers, the growing demands to map short DNA sequences to a genome have promoted the development of fast algorithms and tools. The tools commonly used today are based on ...

    Authors: Yoichi Takenaka, Shigeto Seno and Hideo Matsuda
    Citation: BMC Genomics 2011 12(Suppl 3):S8
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  14. CpG islands are observed in mammals and other vertebrates, generally escape DNA methylation, and tend to occur in the promoters of widely expressed genes. Another class of promoter has lower G+C and CpG conten...

    Authors: Kohji Okamura, Riu Yamashita, Noriko Takimoto, Koki Nishitsuji, Yutaka Suzuki, Takehiro G Kusakabe and Kenta Nakai
    Citation: BMC Genomics 2011 12(Suppl 3):S7
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  15. Over the recent years, a number of genomes have been successfully sequenced and this was followed by genome annotation projects to help understand the biological capabilities of newly sequenced genomes. To imp...

    Authors: Jamshaid Ali, Umadevi Paila and Akash Ranjan
    Citation: BMC Genomics 2011 12(Suppl 3):S6
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  16. Identifying a regulatory module (RM), a bi-set of co-regulated genes and co-regulating conditions (or samples), has been an important challenge in functional genomics and bioinformatics. Given a microarray gen...

    Authors: Mingoo Kim, Hyunjung Shin, Tae Su Chung, Je-Gun Joung and Ju Han Kim
    Citation: BMC Genomics 2011 12(Suppl 3):S5
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  17. Hepatocellular carcinoma (HCC) is the fifth most common cancer worldwide. A number of molecular profiling studies have investigated the changes in gene and protein expression that are associated with various c...

    Authors: Langho Lee, Kai Wang, Gang Li, Zhi Xie, Yuli Wang, Jiangchun Xu, Shaoxian Sun, David Pocalyko, Jong Bhak, Chulhong Kim, Kee-Ho Lee, Ye Jin Jang, Young Il Yeom, Hyang-Sook Yoo and Seungwoo Hwang
    Citation: BMC Genomics 2011 12(Suppl 3):S3
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 12 Supplement 3

  18. RNA degradation is critical to the survival of all cells. With increasing evidence for pervasive transcription in cells, RNA degradation has gained recognition as a means of regulating gene expression. Yet, RN...

    Authors: Christopher W Williams and Heidi G Elmendorf
    Citation: BMC Genomics 2011 12:586
    Content type: Research article Published on:

  19. Motivated by the precarious state of the world's coral reefs, there is currently a keen interest in coral transcriptomics. By identifying changes in coral gene expression that are triggered by particular envir...

    Authors: Nikki Traylor-Knowles, Brian R Granger, Tristan J Lubinski, Jignesh R Parikh, Sara Garamszegi, Yu Xia, Jarrod A Marto, Les Kaufman and John R Finnerty
    Citation: BMC Genomics 2011 12:585
    Content type: Database Published on:

  20. Campylobacter jejuni and Campylobacter coli are human intestinal pathogens of global importance. Zoonotic transmission from livestock animals or animal-derived food is the likely cause for most of these infection...

    Authors: Eugenia Gripp, Daniela Hlahla, Xavier Didelot, Friederike Kops, Sven Maurischat, Karsten Tedin, Thomas Alter, Lüppo Ellerbroek, Kerstin Schreiber, Dietmar Schomburg, Traute Janssen, Patrick Bartholomäus, Dirk Hofreuter, Sabrina Woltemate, Markus Uhr, Birgit Brenneke…
    Citation: BMC Genomics 2011 12:584
    Content type: Research article Published on:

  21. Trimethoprim is a widely prescribed antibiotic for a variety of bacterial infections. It belongs to a class of anti-metabolites - antifolates - which includes drugs used against malarial parasites and in cance...

    Authors: Dipen P Sangurdekar, Zhigang Zhang and Arkady B Khodursky
    Citation: BMC Genomics 2011 12:583
    Content type: Research article Published on:

  22. We previously showed that a VLDL- and LDL-rich mix of human native lipoproteins induces a set of repressive epigenetic marks, i.e. de novo DNA methylation, histone 4 hypoacetylation and histone 4 lysine 20 (H4K20...

    Authors: Rubén Rangel-Salazar, Marie Wickström-Lindholm, Carlos A Aguilar-Salinas, Yolanda Alvarado-Caudillo, Kristina BV Døssing, Manel Esteller, Emmanuel Labourier, Gertrud Lund, Finn C Nielsen, Dalia Rodríguez-Ríos, Martha O Solís-Martínez, Katarzyna Wrobel, Kazimierz Wrobel and Silvio Zaina
    Citation: BMC Genomics 2011 12:582
    Content type: Research article Published on:

  23. Arthropods are the most diverse animal phylum, but their genomic resources are relatively few. While the genome of the branchiopod Daphnia pulex is now available, no other large-scale crustacean genomic resources...

    Authors: Victor Zeng, Karina E Villanueva, Ben S Ewen-Campen, Frederike Alwes, William E Browne and Cassandra G Extavour
    Citation: BMC Genomics 2011 12:581
    Content type: Research article Published on:

  24. The Human Papillomavirus (HPV) genome is divided into early and late coding sequences, including 8 open reading frames (ORFs) and a regulatory region (LCR). Viral gene expression may be regulated through epige...

    Authors: Silvia C Galván, Martha Martínez-Salazar, Víctor M Galván, Rocío Méndez, Gibran T Díaz-Contreras, Moisés Alvarado-Hermida, Rogelio Alcántara-Silva and Alejandro García-Carrancá
    Citation: BMC Genomics 2011 12:580
    Content type: Research article Published on:

  25. Chlamydomonas reinhardtii is widely accepted as a model organism regarding photosynthesis, circadian rhythm, cell mobility, phototaxis, and biotechnology. The complete annotation of the genome allows transcriptom...

    Authors: Jörg Toepel, Stefan P Albaum, Samuel Arvidsson, Alexander Goesmann, Marco la Russa, Kristin Rogge and Olaf Kruse
    Citation: BMC Genomics 2011 12:579
    Content type: Methodology article Published on:

  26. Cis-regulatory modules are bound by transcription factors to regulate gene expression. Characterizing these DNA sequences is central to understanding gene regulatory networks and gaining insight into mechanisms o...

    Authors: Marc S Halfon, Qianqian Zhu, Elizabeth R Brennan and Yiyun Zhou
    Citation: BMC Genomics 2011 12:578
    Content type: Research article Published on:

  27. Many strains of Thermus have been isolated from hot environments around the world. Thermus scotoductus SA-01 was isolated from fissure water collected 3.2 km below surface in a South African gold mine. The isolat...

    Authors: Kamini Gounder, Elzbieta Brzuszkiewicz, Heiko Liesegang, Antje Wollherr, Rolf Daniel, Gerhard Gottschalk, Oleg Reva, Benjamin Kumwenda, Malay Srivastava, Carlos Bricio, José Berenguer, Esta van Heerden and Derek Litthauer
    Citation: BMC Genomics 2011 12:577
    Content type: Research article Published on:

  28. The Type VI secretion apparatus is assembled by a conserved set of proteins encoded within a distinct locus. The putative effector proteins Hcp and VgrG are also encoded within these loci. We have identified n...

    Authors: Pieter De Maayer, Stephanus N Venter, Tim Kamber, Brion Duffy, Teresa A Coutinho and Theo HM Smits
    Citation: BMC Genomics 2011 12:576
    Content type: Research article Published on:

  29. Hormesis is a biphasic biological response characterized by the stimulatory effect at relatively low amounts of chemical compounds which are otherwise detrimental at higher concentrations. A hormetic response ...

    Authors: Maria de la Paz Celorio-Mancera, Seung-Joon Ahn, Heiko Vogel and David G Heckel
    Citation: BMC Genomics 2011 12:575
    Content type: Research article Published on:

  30. Anopheles gambiae is the primary mosquito vector of human malaria parasites in sub-Saharan Africa. To date, three innate immune signaling pathways, including the nuclear factor (NF)-kappaB-dependent Toll and immu...

    Authors: Ashley A Horton, Bo Wang, Lauren Camp, Mark S Price, Arora Arshi, Mate Nagy, Steven A Nadler, James R Faeder and Shirley Luckhart
    Citation: BMC Genomics 2011 12:574
    Content type: Research article Published on:

  31. Telomere replication in Drosophila depends on the transposition of a domesticated retroelement, the HeT-A retrotransposon. The sequence of the HeT-A retrotransposon changes rapidly resulting in differentiated sub...

    Authors: David Piñeyro, Elisenda López-Panadès, María Lucena-Pérez and Elena Casacuberta
    Citation: BMC Genomics 2011 12:573
    Content type: Research article Published on:

  32. The phylogenetic relationships of the lophophorate lineages, ectoprocts, brachiopods and phoronids, within Lophotrochozoa are still controversial. We sequenced an additional mitochondrial genome of the most sp...

    Authors: Maximilian P Nesnidal, Martin Helmkampf, Iris Bruchhaus and Bernhard Hausdorf
    Citation: BMC Genomics 2011 12:572
    Content type: Research article Published on:

  33. When compared to primary chicken embryo fibroblast (CEF) cells, the immortal DF-1 CEF line exhibits enhanced growth rates and susceptibility to oxidative stress. Although genes responsible for cell cycle regul...

    Authors: Byung-Whi Kong, Jeong Yoon Lee, Walter G Bottje, Kentu Lassiter, Jonghyuk Lee and Douglas N Foster
    Citation: BMC Genomics 2011 12:571
    Content type: Research article Published on:

  34. Pneumonia and myocarditis are the most commonly reported diseases due to Histophilus somni, an opportunistic pathogen of the reproductive and respiratory tracts of cattle. Thus far only a few genes involved in me...

    Authors: Shivakumara Siddaramappa, Jean F Challacombe, Alison J Duncan, Allison F Gillaspy, Matthew Carson, Jenny Gipson, Joshua Orvis, Jeremy Zaitshik, Gentry Barnes, David Bruce, Olga Chertkov, J Chris Detter, Cliff S Han, Roxanne Tapia, Linda S Thompson, David W Dyer…
    Citation: BMC Genomics 2011 12:570
    Content type: Research article Published on:

  35. The application of next generation sequencing technologies and bioinformatic scripts to identify high frequency SNPs distributed throughout the peach genome is described. Three peach genomes were sequenced usi...

    Authors: Riaz Ahmad, Dan E Parfitt, Joseph Fass, Ebenezer Ogundiwin, Amit Dhingra, Thomas M Gradziel, Dawei Lin, Nikhil A Joshi, Pedro J Martinez-Garcia and Carlos H Crisosto
    Citation: BMC Genomics 2011 12:569
    Content type: Database Published on:

  36. As yet, few genomic resources have been developed in crustaceans. This lack is particularly evident in Copepoda, given the extraordinary numerical abundance, and taxonomic and ecological diversity of this group.

    Authors: Brad R Foley, Colin G Rose, Daniel E Rundle, Wai Leong, Gary W Moy, Ronald S Burton and Suzanne Edmands
    Citation: BMC Genomics 2011 12:568
    Content type: Research article Published on:

  37. Integrative genomics approaches that combine genotyping and transcriptome profiling in segregating populations have been developed to dissect complex traits. The most common approach is to identify genes whose...

    Authors: Yuna Blum, Guillaume Le Mignon, David Causeur, Olivier Filangi, Colette Désert, Olivier Demeure, Pascale Le Roy and Sandrine Lagarrigue
    Citation: BMC Genomics 2011 12:567
    Content type: Research article Published on:

  38. Despite many efforts, little is known about distribution and interactions of chromatin proteins which contribute to the specificity of chromomeric organization of interphase chromosomes. To address this issue,...

    Authors: Sergey A Demakov, Tatyana Yu Vatolina, Vladimir N Babenko, Valery F Semeshin, Elena S Belyaeva and Igor F Zhimulev
    Citation: BMC Genomics 2011 12:566
    Content type: Research article Published on:

  39. Glucocorticoids such as prednisolone and dexamethasone are critical drugs used in multi-agent chemotherapy protocols used to treat acute lymphoblastic leukemia (ALL), and response to glucocorticoids is highly ...

    Authors: Vivek A Bhadri, Mark J Cowley, Warren Kaplan, Toby N Trahair and Richard B Lock
    Citation: BMC Genomics 2011 12:565
    Content type: Research article Published on:

  40. To complement next-generation sequencing technologies, there is a pressing need for efficient pre-sequencing capture methods with reduced costs and DNA requirement. The Alu family of short interspersed nucleot...

    Authors: Lingling Mei, Xiaofan Ding, Shui-Ying Tsang, Frank W Pun, Siu-Kin Ng, Jianfeng Yang, Cunyou Zhao, Dezhi Li, Weiqing Wan, Chi-Hung Yu, Tze-Ching Tan, Wai-Sang Poon, Gilberto Ka-Kit Leung, Ho-Keung Ng, Liwei Zhang and Hong Xue
    Citation: BMC Genomics 2011 12:564
    Content type: Methodology article Published on:

  42. There is only a limited understanding of the relation between copy number and expression for mammalian genes. We fine mapped cis and trans regulatory loci due to copy number change for essentially all genes using...

    Authors: Richard T Wang, Sangtae Ahn, Christopher C Park, Arshad H Khan, Kenneth Lange and Desmond J Smith
    Citation: BMC Genomics 2011 12:562
    Content type: Research article Published on:

  43. Mammalian olfactory receptors (ORs) are subject to a remarkable but poorly understood regime of transcriptional regulation, whereby individual olfactory neurons each express only one allele of a single member ...

    Authors: Janet M Young, Ralf M Luche and Barbara J Trask
    Citation: BMC Genomics 2011 12:561
    Content type: Research article Published on:

  44. Alu repeats, which account for ~10% of the human genome, were originally considered to be junk DNA. Recent studies, however, suggest that they may contain transcription factor binding sites and hence possibly ...

    Authors: Eugene Bolotin, Karthikeyani Chellappa, Wendy Hwang-Verslues, Jake M Schnabl, Chuhu Yang and Frances M Sladek
    Citation: BMC Genomics 2011 12:560
    Content type: Research article Published on:

  45. One of the goals of livestock genomics research is to identify the genetic differences responsible for variation in phenotypic traits, particularly those of economic importance. Characterizing the genetic vari...

    Authors: Paul Stothard, Jung-Woo Choi, Urmila Basu, Jennifer M Sumner-Thomson, Yan Meng, Xiaoping Liao and Stephen S Moore
    Citation: BMC Genomics 2011 12:559
    Content type: Research article Published on:

  47. Integration of genomic variation with phenotypic information is an effective approach for uncovering genotype-phenotype associations. This requires an accurate identification of the different types of variatio...

    Authors: Bujie Zhan, João Fadista, Bo Thomsen, Jakob Hedegaard, Frank Panitz and Christian Bendixen
    Citation: BMC Genomics 2011 12:557
    Content type: Research article Published on:

  48. Orange-spotted grouper (Epinephelus coioides) is an economically important marine fish cultured in China and Southeast Asian countries. The emergence of infectious viral diseases, including iridovirus and betanod...

    Authors: Youhua Huang, Xiaohong Huang, Yang Yan, Jia Cai, Zhengliang Ouyang, Huachun Cui, Peiran Wang and Qiwei Qin
    Citation: BMC Genomics 2011 12:556
    Content type: Research article Published on:

  49. A paucity of information on biological sex-specific differences in cardiac gene expression in response to diet has prompted this present nutrigenomics investigation.

    Authors: Kate S Collison, Marya Z Zaidi, Zakia Maqbool, Soad M Saleh, Angela Inglis, Nadine J Makhoul, Razan Bakheet, Mohammed Shoukri and Futwan A Al-Mohanna
    Citation: BMC Genomics 2011 12:555
    Content type: Research article Published on:

  50. Comparative studies of amniotes have been hindered by a dearth of reptilian molecular sequences. With the genomic assembly of the green anole, Anolis carolinensis available, non-avian reptilian genes can now be c...

    Authors: Kenro Kusumi, Rob J Kulathinal, Arhat Abzhanov, Stephane Boissinot, Nicholas G Crawford, Brant C Faircloth, Travis C Glenn, Daniel E Janes, Jonathan B Losos, Douglas B Menke, Steven Poe, Thomas J Sanger, Christopher J Schneider, Jessica Stapley, Juli Wade and Jeanne Wilson-Rawls
    Citation: BMC Genomics 2011 12:554
    Content type: Correspondence 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