Acquisition of genome information from single-celled unculturable organisms (radiolaria) by exploiting genome profiling (GP).

abstract：BACKGROUND:Proliferation and tumor differentiation captured by the genomic grade index (GGI) are important prognostic indicators in breast cancer (BC) especially for the estrogen receptor positive (ER+) disease. The aims of this study were to convert this microarray index to a qRT-PCR assay (PCR-GGI), which could be re...

journal_title：BMC genomics

authors： Toussaint J,Sieuwerts AM,Haibe-Kains B,Desmedt C,Rouas G,Harris AL,Larsimont D,Piccart M,Foekens JA,Durbecq V,Sotiriou C

更新日期：2009-09-10 00:00:00

abstract：BACKGROUND:Host genetics is one of several factors known to shape human gut microbiome composition, however, the physiological processes underlying the heritability are largely unknown. Inter-individual differences in host factors secreted into the gut lumen may lead to variation in microbiome composition. One such fac...

journal_title：BMC genomics

authors： Davenport ER,Goodrich JK,Bell JT,Spector TD,Ley RE,Clark AG

更新日期：2016-11-21 00:00:00

abstract：BACKGROUND:Despite the importance of chromosomal translocations in the initiation and/or progression of cancer, a comprehensive catalog of translocation breakpoints in which these are precisely located on the reference sequence of the human genome is not available at present. DESCRIPTION:We have created a database tha...

journal_title：BMC genomics

authors： Novo FJ,de Mendíbil IO,Vizmanos JL

更新日期：2007-01-26 00:00:00

abstract：BACKGROUND:Trifoliate orange (Poncirus trifoliata (L.) Raf.) is extremely cold hardy after a full acclimation; however the underlying molecular mechanisms underlying this economically valuable trait remain poorly understood. In this study, global transcriptome profiles of trifoliate orange under cold conditions (4 °C) ...

journal_title：BMC genomics

authors： Wang M,Zhang X,Liu JH

更新日期：2015-07-29 00:00:00

abstract：BACKGROUND:Calcineurin B-like protein (CBL)-interacting protein kinases (CIPKs) are the primary components of calcium sensors, and play crucial roles in plant developmental processes, hormone signaling transduction, and in the response to exogenous stresses. RESULTS:In this study, 48 CIPK genes (SsCIPKs) were identifi...

journal_title：BMC genomics

authors： Su W,Ren Y,Wang D,Huang L,Fu X,Ling H,Su Y,Huang N,Tang H,Xu L,Que Y

更新日期：2020-12-07 00:00:00

abstract：BACKGROUND:Banana and plantain (Musa spp.) comprise an important part of diets for millions of people around the globe. Low temperature is one of the key environmental stresses which greatly affects the global banana production. To understand the molecular mechanism of the cold-tolerance in plantain we used RNA-Seq bas...

journal_title：BMC genomics

authors： Yang QS,Gao J,He WD,Dou TX,Ding LJ,Wu JH,Li CY,Peng XX,Zhang S,Yi GJ

更新日期：2015-06-10 00:00:00

abstract：BACKGROUND:Oxidative stress caused by ground level ozone is a contributor to yield loss in a number of important crop plants. Soybean (Glycine max) is considered to be ozone sensitive, and current research into its response to oxidative stress is limited. To better understand the genetic response in soybean to oxidativ...

journal_title：BMC genomics

authors： Whaley A,Sheridan J,Safari S,Burton A,Burkey K,Schlueter J

更新日期：2015-06-04 00:00:00

abstract：BACKGROUND:Oxidative stress is a common stress encountered by living organisms and is due to an imbalance between intracellular reactive oxygen and nitrogen species (ROS, RNS) and cellular antioxidant defence. To defend themselves against ROS/RNS, bacteria possess a subsystem of detoxification enzymes, which are classi...

journal_title：BMC genomics

authors： Thybert D,Avner S,Lucchetti-Miganeh C,Chéron A,Barloy-Hubler F

更新日期：2008-12-31 00:00:00

abstract：BACKGROUND:Aphid (Macrosiphoniella sanbourni) stress drastically influences the yield and quality of chrysanthemum, and grafting has been widely used to improve tolerance to biotic and abiotic stresses. However, the effect of grafting on the resistance of chrysanthemum to aphids remains unclear. Therefore, we used the ...

journal_title：BMC genomics

authors： Zhang XY,Sun XZ,Zhang S,Yang JH,Liu FF,Fan J

更新日期：2019-10-25 00:00:00

abstract：BACKGROUND:Although numerous investigations have compared gene expression microarray platforms, preprocessing methods and batch correction algorithms using constructed spike-in or dilution datasets, there remains a paucity of studies examining the properties of microarray data using diverse biological samples. Most mic...

journal_title：BMC genomics

authors： Richard AC,Lyons PA,Peters JE,Biasci D,Flint SM,Lee JC,McKinney EF,Siegel RM,Smith KG

更新日期：2014-08-04 00:00:00

abstract：BACKGROUND:Many plant genes have been identified through whole genome and deep transcriptome sequencing and other methods; yet our knowledge on the function of many of these genes remains limited. The integration and analysis of large gene-expression datasets gives researchers the ability to formalize hypotheses concer...

journal_title：BMC genomics

authors： Wilson TJ,Lai L,Ban Y,Ge SX

更新日期：2012-06-13 00:00:00

abstract：BACKGROUND:Petal nectar spurs, which facilitate pollination through animal attraction and pollen placement, represent a key innovation promoting diversification in the genus Aquilegia (Ranunculaceae). Identifying the genetic components that contribute to the development of these three-dimensional structures will inform...

journal_title：BMC genomics

authors： Ballerini ES,Kramer EM,Hodges SA

更新日期：2019-08-22 00:00:00

abstract：BACKGROUND:Chemical bioavailability is an important dose metric in environmental risk assessment. Although many approaches have been used to evaluate bioavailability, not a single approach is free from limitations. Previously, we developed a new genomics-based approach that integrated microarray technology and regressi...

journal_title：BMC genomics

authors： Gong P,Nan X,Barker ND,Boyd RE,Chen Y,Wilkins DE,Johnson DR,Suedel BC,Perkins EJ

更新日期：2016-03-08 00:00:00

abstract：BACKGROUND:Thoroughbred horses are the most expensive domestic animals, and their running ability and knowledge about their muscle-related diseases are important in animal genetics. While the horse reference genome is available, there has been no large-scale functional annotation of the genome using expressed genes der...

journal_title：BMC genomics

authors： Park KD,Park J,Ko J,Kim BC,Kim HS,Ahn K,Do KT,Choi H,Kim HM,Song S,Lee S,Jho S,Kong HS,Yang YM,Jhun BH,Kim C,Kim TH,Hwang S,Bhak J,Lee HK,Cho BW

更新日期：2012-09-12 00:00:00

abstract：BACKGROUND:The recent advances in next generation sequencing technology have made the sequencing of RNA (i.e., RNA-Seq) an extemely popular approach for gene expression analysis. Identification of significant differential expression represents a crucial initial step in these analyses, on which most subsequent inference...

journal_title：BMC genomics

authors： Yang W,Rosenstiel PC,Schulenburg H

更新日期：2016-08-04 00:00:00

abstract：BACKGROUND:Human Malaria is transmitted by mosquitoes of the genus Anopheles. Transmission is a complex phenomenon involving biological and environmental factors of humans, parasites and mosquitoes. Among more than 500 anopheline species, only a few species from different branches of the mosquito evolutionary tree tran...

journal_title：BMC genomics

authors： Martínez-Barnetche J,Gómez-Barreto RE,Ovilla-Muñoz M,Téllez-Sosa J,García López DE,Dinglasan RR,Ubaida Mohien C,MacCallum RM,Redmond SN,Gibbons JG,Rokas A,Machado CA,Cazares-Raga FE,González-Cerón L,Hernández-Martínez S,Rod

更新日期：2012-05-30 00:00:00

abstract：BACKGROUND:Actinobacillus pleuropneumoniae causes pleuropneumonia in pigs, a disease which is associated with high morbidity and mortality, as well as impaired animal welfare. To obtain in-depth understanding of this infection, the interplay between virulence factors of the pathogen and defense mechanisms of the porcin...

journal_title：BMC genomics

authors： Brogaard L,Klitgaard K,Heegaard PM,Hansen MS,Jensen TK,Skovgaard K

更新日期：2015-05-28 00:00:00

abstract：BACKGROUND:The incidence of congenital heart disease (CHD) is continuously increasing among infants born alive nowadays, making it one of the leading causes of infant morbidity worldwide. Various studies suggest that both genetic and environmental factors lead to CHD, and therefore identifying its candidate genes and d...

journal_title：BMC genomics

authors： He D,Liu ZP,Chen L

更新日期：2011-12-02 00:00:00

abstract：BACKGROUND:Of the hundreds of Vibrio cholerae serogroups, O1 and O139 are the main epidemic-causing ones. Although non-O1/non-O139 serogroups rarely cause epidemics, the possibility exists for strains within them to have pathogenic potential. RESULTS:We selected 25 representative strains within 16 V. cholerae serogrou...

journal_title：BMC genomics

authors： Li Z,Lu X,Wang D,Liang WL,Zhang J,Li J,Xu J,Pang B,Kan B

更新日期：2019-03-25 00:00:00

abstract：BACKGROUND:Lack of power and reproducibility are caveats of genetic association studies of common complex diseases. Indeed, the heterogeneity of disease etiology demands that causal models consider the simultaneous involvement of multiple genes. Rothman's sufficient-cause model, which is well known in epidemiology, pro...

journal_title：BMC genomics

authors： Lynn KS,Lu CH,Yang HY,Hsu WL,Pan WH

更新日期：2013-07-23 00:00:00

abstract：BACKGROUND:Aligning protein-protein interaction (PPI) networks is very important to discover the functionally conserved sub-structures between different species. In recent years, the global PPI network alignment problem has been extensively studied aiming at finding the one-to-one alignment with the maximum matching sc...

journal_title：BMC genomics

authors： Zhu Y,Li Y,Liu J,Qin L,Yu JX

更新日期：2018-09-24 00:00:00

abstract：BACKGROUND:The Chinese Taihu is one of the most prolific pig breeds in the world, which farrows at least five more piglets per litter than Western pig breeds partly due to a greater ovulation rate. Variation of ovulation rate maybe associated with the differences in the transcriptome of Chinese Taihu and Large White ov...

journal_title：BMC genomics

authors： Sun X,Mei S,Tao H,Wang G,Su L,Jiang S,Deng C,Xiong Y,Li F

更新日期：2011-02-16 00:00:00

abstract：BACKGROUND:Changes in gene regulation are thought to be crucial for the adaptation of organisms to their environment. Transcriptome analyses can be used to identify candidate genes for ecological adaptation, but can be complicated by variation in gene expression between tissues, sexes, or individuals. Here we use high-...

journal_title：BMC genomics

authors： Catalán A,Hutter S,Parsch J

更新日期：2012-11-21 00:00:00

abstract：BACKGROUND:Clock genes are considered to be the molecular core of biological clock in vertebrates and they are directly involved in the regulation of daily rhythms in vertebrate tissues such as skeletal muscles. Fish myotomes are composed of anatomically segregated fast and slow muscle fibers that possess different met...

journal_title：BMC genomics

authors： Wu P,Li YL,Cheng J,Chen L,Zhu X,Feng ZG,Zhang JS,Chu WY

更新日期：2016-12-08 00:00:00

abstract：BACKGROUND:Accurate gene model predictions and annotation of alternative splicing events are imperative for genomic studies in organisms that contain genes with multiple exons. Currently most gene models for the intracellular parasite, Toxoplasma gondii, are based on computer model predictions without cDNA sequence ver...

journal_title：BMC genomics

authors： Hassan MA,Melo MB,Haas B,Jensen KD,Saeij JP

更新日期：2012-12-12 00:00:00

abstract：BACKGROUND:Single cell transcriptome sequencing has become an increasingly valuable technology for dissecting complex biology at a resolution impossible with bulk sequencing. However, the gap between the technical expertise required to effectively work with the resultant high dimensional data and the biological experti...

journal_title：BMC genomics

authors： Feng D,Whitehurst CE,Shan D,Hill JD,Yue YG

更新日期：2019-08-27 00:00:00

abstract：BACKGROUND:Skeletal muscle mass can be markedly reduced through a process called atrophy, as a consequence of many diseases or critical physiological and environmental situations. Atrophy is characterised by loss of contractile proteins and reduction of fiber volume. Although in the last decade the molecular aspects un...

journal_title：BMC genomics

authors： Calura E,Cagnin S,Raffaello A,Laveder P,Lanfranchi G,Romualdi C

更新日期：2008-12-23 00:00:00

abstract：BACKGROUND:Adjuvant Radiotherapy (RT) after surgical removal of tumors proved beneficial in long-term tumor control and treatment planning. For many years, it has been well concluded that radio-sensitivities of tumors upon radiotherapy decrease according to the sizes of tumors and RT models based on Poisson statistics ...

journal_title：BMC genomics

authors： Yang JY,Niemierko A,Yang MQ,Deng Y

更新日期：2008-09-16 00:00:00

abstract：BACKGROUND:Urechis unicinctus, an echiuran worm inhabiting the U-shaped burrows in the coastal mud flats, is an important commercial and ecological invertebrate in Northeast Asian countries, which has potential applications in the study of animal evolution, coastal sediment improvement and marine drug development. Furt...

journal_title：BMC genomics

authors： Liu X,Zhang L,Zhang Z,Ma X,Liu J

更新日期：2015-10-21 00:00:00

abstract：BACKGROUND:Lower eggshell quality in the late laying period leads to economic loss. It is a major threat to the quality and safety of egg products. Age-related variations in ultrastructure were thought to induce this deterioration. Eggshell formation is a highly complex process under precise regulation of genes and bio...

journal_title：BMC genomics

authors： Feng J,Zhang HJ,Wu SG,Qi GH,Wang J

更新日期：2020-11-09 00:00:00