A Caenorhabditis motif compendium for studying transcriptional gene regulation.

abstract：:An amendment to this paper has been published and can be accessed via the original article. ...

journal_title：BMC genomics

authors： Assefa AT,Vandesompele J,Thas O

更新日期：2020-06-03 00:00:00

abstract：BACKGROUND:Matrix attachment regions (MAR) are the sites on genomic DNA that interact with the nuclear matrix. There is increasing evidence for the involvement of MAR in regulation of gene expression. The unsuitability of experimental detection of MAR for genome-wide analyses has led to the development of computational...

journal_title：BMC genomics

authors： Anthony A,Blaxter M

更新日期：2007-11-15 00:00:00

abstract：BACKGROUND:Sorghum [Sorghum bicolor (L.) Moench] is an important cereal crop for dryland areas in the United States and for small-holder farmers in Africa. Natural variation of sorghum grain composition (protein, fat, and starch) between accessions can be used for crop improvement, but the genetic controls are still un...

journal_title：BMC genomics

authors： Rhodes DH,Hoffmann L Jr,Rooney WL,Herald TJ,Bean S,Boyles R,Brenton ZW,Kresovich S

更新日期：2017-01-05 00:00:00

abstract：BACKGROUND:The complete sequences of chloroplast genomes provide wealthy information regarding the evolutionary history of species. With the advance of next-generation sequencing technology, the number of completely sequenced chloroplast genomes is expected to increase exponentially, powerful computational tools annota...

journal_title：BMC genomics

authors： Liu C,Shi L,Zhu Y,Chen H,Zhang J,Lin X,Guan X

更新日期：2012-12-20 00:00:00

abstract：BACKGROUND:The androgen receptor plays a critical role throughout the progression of prostate cancer and is an important drug target for this disease. While chromatin immunoprecipitation coupled with massively parallel sequencing (ChIP-Seq) is becoming an essential tool for studying transcription and chromatin modifica...

journal_title：BMC genomics

authors： Zhu Z,Shi M,Hu W,Estrella H,Engebretsen J,Nichols T,Briere D,Hosea N,Los G,Rejto PA,Fanjul A

更新日期：2012-07-31 00:00:00

abstract：BACKGROUND:S. erythraea is a Gram-positive filamentous bacterium used for the industrial-scale production of erythromycin A which is of high clinical importance. In this work, we sequenced the whole genome of a high-producing strain (E3) obtained by random mutagenesis and screening from the wild-type strain NRRL23338, ...

journal_title：BMC genomics

authors： Li YY,Chang X,Yu WB,Li H,Ye ZQ,Yu H,Liu BH,Zhang Y,Zhang SL,Ye BC,Li YX

更新日期：2013-07-31 00:00:00

abstract：BACKGROUND:Understanding the genome sequence-specific positioning of nucleosomes is essential to understand various cellular processes, such as transcriptional regulation and replication. As a typical example, the 10-bp periodicity of AA/TT and GC dinucleotides has been reported in several species, but it is still uncl...

journal_title：BMC genomics

authors： Tanaka Y,Yamashita R,Suzuki Y,Nakai K

更新日期：2010-05-17 00:00:00

abstract：BACKGROUND:Previous studies of individual genes have shown that in a self-enforcing way, dimethylation at histone 3 lysine 9 (dimethyl-H3K9) and DNA methylation cooperate to maintain a repressive mode of inactive genes. Less clear is whether this cooperation is generalized in mammalian genomes, such as mouse genome. He...

journal_title：BMC genomics

authors： Wu J,Wang SH,Potter D,Liu JC,Smith LT,Wu YZ,Huang TH,Plass C

更新日期：2007-05-24 00:00:00

abstract：BACKGROUND:The freshwater snail Lymnaea stagnalis (L. stagnalis) has served as a successful model for studies in the field of Neuroscience. However, a serious drawback in the molecular analysis of the nervous system of L. stagnalis has been the lack of large-scale genomic or neuronal transcriptome information, thereby ...

journal_title：BMC genomics

authors： Feng ZP,Zhang Z,van Kesteren RE,Straub VA,van Nierop P,Jin K,Nejatbakhsh N,Goldberg JI,Spencer GE,Yeoman MS,Wildering W,Coorssen JR,Croll RP,Buck LT,Syed NI,Smit AB

更新日期：2009-09-23 00:00:00

abstract：BACKGROUND:Although the study of gene regulation via the action of specific microRNAs (miRNAs) has experienced a boom in recent years, the analysis of genome-wide interaction networks among miRNAs and respective targeted mRNAs has lagged behind. MicroRNAs simultaneously target many transcripts and fine-tune the express...

journal_title：BMC genomics

authors： Nunez YO,Truitt JM,Gorini G,Ponomareva ON,Blednov YA,Harris RA,Mayfield RD

更新日期：2013-10-22 00:00:00

abstract：BACKGROUND:Lactose provides an easily-digested energy source for neonates, and is the primary carbohydrate in milk in most species. Bovine lactose is also a key component of many human food products. However, compared to analyses of other milk components, the genetic control of lactose has been little studied. Here we ...

journal_title：BMC genomics

authors： Lopdell TJ,Tiplady K,Struchalin M,Johnson TJJ,Keehan M,Sherlock R,Couldrey C,Davis SR,Snell RG,Spelman RJ,Littlejohn MD

更新日期：2017-12-15 00:00:00

abstract：BACKGROUND:Tandem repeats are ubiquitous and abundant in higher eukaryotic genomes and constitute, along with transposable elements, much of DNA underlying centromeres and other heterochromatic domains. In maize, centromeric satellite repeat (CentC) and centromeric retrotransposons (CR), a class of Ty3/gypsy retrotrans...

journal_title：BMC genomics

authors： Sharma A,Wolfgruber TK,Presting GG

更新日期：2013-03-04 00:00:00

abstract：BACKGROUND:Juncus effusus L. (family: Juncaceae; order: Poales) is a helophytic rush growing in temperate damp or wet terrestrial habitats and is of almost cosmopolitan distribution. The species has been studied intensively with respect to its interaction with co-occurring plants as well as microbes being involved in m...

journal_title：BMC genomics

authors： Arslan M,Devisetty UK,Porsch M,Große I,Müller JA,Michalski SG

更新日期：2019-06-13 00:00:00

abstract：BACKGROUND:Glutamine is a major amino donor for the synthesis of amino acids, nucleotides, and other nitrogen-containing compounds in all organisms. In addition to its role in nutrition and metabolism, glutamine can also function as a signaling molecule in bacteria, yeast, and humans. By contrast, the functions of glut...

journal_title：BMC genomics

authors： Kan CC,Chung TY,Juo YA,Hsieh MH

更新日期：2015-09-25 00:00:00

abstract：BACKGROUND:Intergenic splicing resulting in the combination of mRNAs sequences from distinct genes is a newly identified mechanism likely to contribute to protein diversity. Few cases have been described, most of them involving neighboring genes and thus suggesting a cotranscription event presumably due to transcriptio...

journal_title：BMC genomics

authors： Roux M,Levéziel H,Amarger V

更新日期：2006-04-04 00:00:00

abstract：BACKGROUND:HPA axis plays a major role in physiological homeostasis. It is also involved in stress and adaptive response to the environment. In farm animals in general and specifically in pigs, breeding strategies have highly favored production traits such as lean growth rate, feed efficiency and prolificacy at the cos...

journal_title：BMC genomics

authors： Sautron V,Terenina E,Gress L,Lippi Y,Billon Y,Larzul C,Liaubet L,Villa-Vialaneix N,Mormède P

更新日期：2015-11-17 00:00:00

abstract：BACKGROUND:Infectious salmon anemia virus (ISAV) causes a multisystemic disease responsible for severe losses in salmon aquaculture. Better understanding of factors that explain variations in resistance between individuals and families is essential for development of strategies for disease control. To approach this, we...

journal_title：BMC genomics

authors： Jørgensen SM,Afanasyev S,Krasnov A

更新日期：2008-04-18 00:00:00

abstract：BACKGROUND:Intellectual Disability (ID) is among the most common global disorders, yet etiology is unknown in ~30% of patients despite clinical assessment. Whole genome sequencing (WGS) is able to interrogate the entire genome, providing potential to diagnose idiopathic patients. METHODS:We conducted WGS on eight chil...

journal_title：BMC genomics

authors： Zahir FR,Mwenifumbo JC,Chun HE,Lim EL,Van Karnebeek CDM,Couse M,Mungall KL,Lee L,Makela N,Armstrong L,Boerkoel CF,Langlois SL,McGillivray BM,Jones SJM,Friedman JM,Marra MA

更新日期：2017-05-24 00:00:00

abstract：BACKGROUND:Horses have been strongly selected for speed, strength, and endurance-exercise traits since the onset of domestication. As a result, highly specialized horse breeds have developed with many modern horse breeds often representing closed populations with high phenotypic and genetic uniformity. However, a great...

journal_title：BMC genomics

authors： Velie BD,Lillie M,Fegraeus KJ,Rosengren MK,Solé M,Wiklund M,Ihler CF,Strand E,Lindgren G

更新日期：2019-02-04 00:00:00

abstract：BACKGROUND:Hulless barley, also called naked barley, is an important cereal crop worldwide, serving as a healthy food both for human consumption and animal feed. Nevertheless, it often suffered from drought stress during its growth and development, resulting in a drastic reduction in barley yields. Therefore, study on ...

journal_title：BMC genomics

authors： Zeng X,Bai L,Wei Z,Yuan H,Wang Y,Xu Q,Tang Y,Nyima T

更新日期：2016-05-20 00:00:00

abstract：BACKGROUND:Rapid acquisition of accurate genotyping information is essential for all genetic marker-based studies. For species with relatively small genomes, complete genome resequencing is a feasible approach for genotyping; however, for species with large and highly repetitive genomes, the acquisition of whole genome...

journal_title：BMC genomics

authors： Morishige DT,Klein PE,Hilley JL,Sahraeian SM,Sharma A,Mullet JE

更新日期：2013-07-05 00:00:00

abstract：BACKGROUND:Sweet sorghum is an annual C4 crop considered to be one of the most promising bio-energy crops due to its high sugar content in stem, yet it is poorly understood how this plant increases its sugar content in response to salt stress. In response to high NaCl, many of its major processes, such as photosynthesi...

journal_title：BMC genomics

authors： Sui N,Yang Z,Liu M,Wang B

更新日期：2015-07-19 00:00:00

abstract：BACKGROUND:Alternative synonymous codons are not used with equal frequencies. In addition, the contexts of codons - neighboring nucleotides and neighboring codons - can have certain patterns. The codon context can influence both translational accuracy and elongation rates. However, it is not known how strong or conserv...

journal_title：BMC genomics

authors： Tats A,Tenson T,Remm M

更新日期：2008-10-08 00:00:00

abstract：BACKGROUND:Genotyping-by-sequencing (GBS) is becoming an attractive alternative to array-based methods for genotyping individuals for a large number of single nucleotide polymorphisms (SNPs). Costs can be lowered by reducing the mean sequencing depth, but this results in genotype calls of lower quality. A common analys...

journal_title：BMC genomics

authors： Dodds KG,McEwan JC,Brauning R,Anderson RM,van Stijn TC,Kristjánsson T,Clarke SM

更新日期：2015-12-09 00:00:00

abstract：BACKGROUND:The Pregnancy-associated glycoproteins (PAGs) belong to a large family of aspartic peptidases expressed exclusively in the placenta of species in the Artiodactyla order. In cattle, the PAG gene family is comprised of at least 22 transcribed genes, as well as some variants. Phylogenetic analyses have shown th...

journal_title：BMC genomics

authors： Telugu BP,Walker AM,Green JA

更新日期：2009-04-24 00:00:00

abstract：BACKGROUND:Transposable elements are selfish genetic sequences which only occasionally provide useful functions to their host species. In addition, models of mobile element evolution assume a second type of selfishness: elements of different families do not cooperate, but they independently fight for their survival in ...

journal_title：BMC genomics

authors： Marco A,Marín I

更新日期：2008-05-14 00:00:00

abstract：BACKGROUND:About 6 million Americans suffer from heart failure and 70% of heart failure cases are caused by myocardial infarction (MI). Following myocardial infarction, increased cytokines induce two major types of macrophages: classically activated macrophages which contribute to extracellular matrix destruction and a...

journal_title：BMC genomics

authors： Wang Y,Yang T,Ma Y,Halade GV,Zhang J,Lindsey ML,Jin YF

更新日期：2012-01-01 00:00:00

abstract：BACKGROUND:Segmental duplications (SDs) commonly exist in plant and animal genomes, playing crucial roles in genomic rearrangement, gene innovation and the formation of copy number variants. However, they have received little attention in most livestock species. RESULTS:Aiming at characterizing SDs across the genomes ...

journal_title：BMC genomics

authors： Feng X,Jiang J,Padhi A,Ning C,Fu J,Wang A,Mrode R,Liu JF

更新日期：2017-04-12 00:00:00

abstract：BACKGROUND:Spinal cord injury leads to neurological dysfunctions affecting the motor, sensory as well as the autonomic systems. Increased excitability of motor neurons has been implicated in injury-induced spasticity, where the reappearance of self-sustained plateau potentials in the absence of modulatory inputs from t...

journal_title：BMC genomics

authors： Ryge J,Winther O,Wienecke J,Sandelin A,Westerdahl AC,Hultborn H,Kiehn O

更新日期：2010-06-09 00:00:00

abstract：BACKGROUND:Fusarium head blight (FHB), caused mainly by Fusarium graminearum (Fg) Schwabe (teleomorph: Gibberellazeae Schwble), brings serious damage to wheat production. Chinese wheat landrace Wangshuibai is one of the most important resistance sources in the world. The knowledge of mechanism underlying its resistance...

journal_title：BMC genomics

authors： Xiao J,Jin X,Jia X,Wang H,Cao A,Zhao W,Pei H,Xue Z,He L,Chen Q,Wang X

更新日期：2013-03-21 00:00:00