Transcriptome analysis of Sacha Inchi (Plukenetia volubilis L.) seeds at two developmental stages.

abstract：BACKGROUND:Circular chromosome conformation capture (4C) has provided important insights into three dimensional (3D) genome organization and its critical impact on the regulation of gene expression. We developed a new quantitative framework based on polymer physics for the analysis of paired-end sequencing 4C (PE-4Cseq...

journal_title：BMC genomics

authors： Zepeda-Mendoza CJ,Mukhopadhyay S,Wong ES,Harder N,Splinter E,de Wit E,Eckersley-Maslin MA,Ried T,Eils R,Rohr K,Mills A,de Laat W,Flicek P,Sengupta AM,Spector DL

更新日期：2015-11-21 00:00:00

abstract：BACKGROUND:Insect mitochondrial genomes (mitogenomes) are the most extensively used genetic marker for evolutionary and population genetics studies of insects. The Pentatomoidea superfamily is economically important and the largest superfamily within Pentatomomorpha with over 7,000 species. To better understand the div...

journal_title：BMC genomics

authors： Yuan ML,Zhang QL,Guo ZL,Wang J,Shen YY

更新日期：2015-06-16 00:00:00

abstract：BACKGROUND:Macrobrachium rosenbergii, is one of a major freshwater prawn species cultured in Southeast Asia. White tail disease (WTD), caused by Macrobrachium rosenbergii nodavirus (MrNV), is a serious problem in farm cultivation and is responsible for up to 100% mortality in the post larvae stage. Molecular data on ho...

journal_title：BMC genomics

authors： Pasookhush P,Hindmarch C,Sithigorngul P,Longyant S,Bendena WG,Chaivisuthangkura P

更新日期：2019-10-22 00:00:00

abstract：BACKGROUND:One of the key characters of social insects is the division of labor, in which different tasks are allocated to various castes. In termites, one of the representative groups of social insects, morphological differences as well as behavioral differences can be recognized among castes. However, very little is ...

journal_title：BMC genomics

authors： Ishikawa Y,Okada Y,Ishikawa A,Miyakawa H,Koshikawa S,Miura T

更新日期：2010-05-20 00:00:00

abstract：BACKGROUND:Relationships between an organism and its environment can be fundamental in the understanding how populations change over time and species arise. Local ecological conditions can shape variation at multiple levels, among these are the evolutionary history and trajectories of coding genes. This study examines ...

journal_title：BMC genomics

authors： Allan CW,Matzkin LM

更新日期：2019-10-12 00:00:00

abstract：BACKGROUND:The ultimate phenome of any organism is modulated by regulated transcription of many genes. Characterization of genetic makeup is thus crucial for understanding the molecular basis of phenotypic diversity, evolution and response to intra- and extra-cellular stimuli. Chickpea is the world's third most importa...

journal_title：BMC genomics

authors： Ashraf N,Ghai D,Barman P,Basu S,Gangisetty N,Mandal MK,Chakraborty N,Datta A,Chakraborty S

更新日期：2009-09-05 00:00:00

abstract：BACKGROUND:DNA methylation at promoters is largely correlated with inhibition of gene expression. However, the role of DNA methylation at enhancers is not fully understood, although a crosstalk with chromatin marks is expected. Actually, there exist contradictory reports about positive and negative correlations between...

journal_title：BMC genomics

authors： Sharifi-Zarchi A,Gerovska D,Adachi K,Totonchi M,Pezeshk H,Taft RJ,Schöler HR,Chitsaz H,Sadeghi M,Baharvand H,Araúzo-Bravo MJ

更新日期：2017-12-12 00:00:00

abstract：BACKGROUND:Codon usage analysis has been a classical topic for decades and has significances for studies of evolution, mRNA translation, and new gene discovery, etc. While the codon usage varies among different members of the plant kingdom, indicating the necessity for species-specific study, this work has mostly been ...

journal_title：BMC genomics

authors： Feng C,Xu CJ,Wang Y,Liu WL,Yin XR,Li X,Chen M,Chen KS

更新日期：2013-10-25 00:00:00

abstract：BACKGROUND:Inferring the microbial interaction networks (MINs) and modeling their dynamics are critical in understanding the mechanisms of the bacterial ecosystem and designing antibiotic and/or probiotic therapies. Recently, several approaches were proposed to infer MINs using the generalized Lotka-Volterra (gLV) mode...

journal_title：BMC genomics

authors： Alshawaqfeh M,Serpedin E,Younes AB

更新日期：2017-03-27 00:00:00

abstract：BACKGROUND:The mosquito Anopheles gambiae is a major vector of human malaria. Increasing evidence indicates that blood cells (hemocytes) comprise an essential arm of the mosquito innate immune response against both bacteria and malaria parasites. To further characterize the role of hemocytes in mosquito immunity, we un...

journal_title：BMC genomics

authors： Baton LA,Robertson A,Warr E,Strand MR,Dimopoulos G

更新日期：2009-06-05 00:00:00

abstract：BACKGROUND:A sense-antisense gene pair (SAGP) is a gene pair where two oppositely transcribed genes share a common nucleotide sequence region. In eukaryotic genomes, SAGPs can be organized in complex sense-antisense architectures (CSAGAs) in which at least one sense gene shares loci with two or more antisense partners....

journal_title：BMC genomics

authors： Grinchuk OV,Motakis E,Kuznetsov VA

更新日期：2010-02-10 00:00:00

abstract：BACKGROUND:Aquaculture is the quickest growing sector in agriculture. However, QTL for important traits have been only identified in a few aquaculture species. We conducted QTL mapping for growth traits in an Asian seabass F(2) family with 359 individuals using 123 microsatellites and 22 SNPs, and performed association...

journal_title：BMC genomics

authors： Xia JH,Lin G,He X,Liu P,Liu F,Sun F,Tu R,Yue GH

更新日期：2013-05-01 00:00:00

abstract：BACKGROUND:Sugarcane (Saccharum spp.) is predominantly an autopolyploid plant with a variable ploidy level, frequent aneuploidy and a large genome that hampers investigation of its organization. Genetic architecture studies are important for identifying genomic regions associated with traits of interest. However, due t...

journal_title：BMC genomics

authors： Balsalobre TW,da Silva Pereira G,Margarido GR,Gazaffi R,Barreto FZ,Anoni CO,Cardoso-Silva CB,Costa EA,Mancini MC,Hoffmann HP,de Souza AP,Garcia AA,Carneiro MS

更新日期：2017-01-11 00:00:00

abstract：BACKGROUND:Emerging evidence has been experimentally confirmed the tissue-specific expression of circRNAs (circRNAs). Global identification of human tissue-specific circRNAs is crucial for the functionality study, which facilitates the discovery of circRNAs for potential diagnostic biomarkers. RESULTS:In this study, c...

journal_title：BMC genomics

authors： Liu YC,Chiu YJ,Li JR,Sun CH,Liu CC,Huang HD

更新日期：2018-01-19 00:00:00

abstract：BACKGROUND:Distichiasis, an ocular disorder in which aberrant cilia (eyelashes) grow from the opening of the Meibomian glands of the eyelid, has been reported in Friesian horses. These misplaced cilia can cause discomfort, chronic keratitis, and corneal ulceration, potentially impacting vision due to corneal fibrosis, ...

journal_title：BMC genomics

authors： Hisey EA,Hermans H,Lounsberry ZT,Avila F,Grahn RA,Knickelbein KE,Duward-Akhurst SA,McCue ME,Kalbfleisch TS,Lassaline ME,Back W,Bellone RR

更新日期：2020-11-30 00:00:00

abstract：BACKGROUND:Tree peony (Paeonia suffruticosa Andrews) is a globally famous ornamental flower, with large and colorful flowers and abundant flower types. However, a relatively short and uniform flowering period hinders the applications and production of ornamental tree peony. Unfortunately, the molecular mechanism of reg...

journal_title：BMC genomics

authors： Wang S,Gao J,Xue J,Xue Y,Li D,Guan Y,Zhang X

更新日期：2019-07-11 00:00:00

abstract：BACKGROUND:The Multinational Brassica rapa Genome Sequencing Project (BrGSP) has developed valuable genomic resources, including BAC libraries, BAC-end sequences, genetic and physical maps, and seed BAC sequences for Brassica rapa. An integrated linkage map between the amphidiploid B. napus and diploid B. rapa will fac...

journal_title：BMC genomics

authors： Xu J,Qian X,Wang X,Li R,Cheng X,Yang Y,Fu J,Zhang S,King GJ,Wu J,Liu K

更新日期：2010-10-22 00:00:00

abstract：BACKGROUND:Phenylalanine ammonia lyase (PAL) is a key enzyme of the phenylpropanoid pathway that catalyzes the deamination of phenylalanine to trans-cinnamic acid, a precursor for the lignin and flavonoid biosynthetic pathways. To date, PAL genes have been less extensively studied in gymnosperms than in angiosperms. Ou...

journal_title：BMC genomics

authors： Bagal UR,Leebens-Mack JH,Lorenz WW,Dean JF

更新日期：2012-06-11 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:Insertion sequences (IS) are small transposable elements, commonly found in bacterial genomes. Identifying the location of IS in bacterial genomes can be useful for a variety of purposes including epidemiological tracking and predicting antibiotic resistance. However IS are commonly present in multiple copie...

journal_title：BMC genomics

authors： Hawkey J,Hamidian M,Wick RR,Edwards DJ,Billman-Jacobe H,Hall RM,Holt KE

更新日期：2015-09-03 00:00:00

abstract：BACKGROUND:Research on the aryl hydrocarbon receptor (AHR) has largely focused on variations in toxic outcomes resulting from its activation by halogenated aromatic hydrocarbons. But the AHR also plays key roles in regulating pathways critical for development, and after decades of research the mechanisms underlying phy...

journal_title：BMC genomics

authors： Sun RX,Chong LC,Simmons TT,Houlahan KE,Prokopec SD,Watson JD,Moffat ID,Lensu S,Lindén J,P'ng C,Okey AB,Pohjanvirta R,Boutros PC

更新日期：2014-12-03 00:00:00

abstract：BACKGROUND:Aedes aegypti is the principle vector of many arboviruses, including dengue virus and Zika virus, which are transmitted when an infected female mosquito takes a blood meal in order to initiate vitellogenesis. During blood digestion, ~ 10 mM heme-iron is ingested into the midgut lumen. While heme acts as both...

journal_title：BMC genomics

authors： Eggleston H,Adelman ZN

更新日期：2020-08-31 00:00:00

abstract：BACKGROUND:To date, oil-rich plants are the main source of biodiesel products. Because concerns have been voiced about the impact of oil-crop cultivation on the price of food commodities, the interest in oil plants not used for food production and amenable to cultivation on non-agricultural land has soared. As a non-fo...

journal_title：BMC genomics

authors： Costa GG,Cardoso KC,Del Bem LE,Lima AC,Cunha MA,de Campos-Leite L,Vicentini R,Papes F,Moreira RC,Yunes JA,Campos FA,Da Silva MJ

更新日期：2010-08-06 00:00:00

abstract：BACKGROUND:Celiac disease (CD) is caused by an uncontrolled immune response to gluten, a heterogeneous mixture of wheat storage proteins. The CD-toxicity of these proteins and their derived peptides is depending on the presence of specific T-cell epitopes (9-mer peptides; CD epitopes) that mediate the stimulation of HL...

journal_title：BMC genomics

authors： Salentijn EM,Mitea DC,Goryunova SV,van der Meer IM,Padioleau I,Gilissen LJ,Koning F,Smulders MJ

更新日期：2012-06-22 00:00:00

abstract：BACKGROUND:Functional analysis of the catfish genome will be useful for the identification of genes controlling traits of economic importance, especially innate disease resistance. However, this species lacks a platform for global gene expression profiling, so we designed a first generation high-density oligonucleotide...

journal_title：BMC genomics

authors： Li RW,Waldbieser GC

更新日期：2006-06-01 00:00:00

abstract：BACKGROUND:Preterm birth (PTB), birth at <37 weeks of gestation, is a significant global public health problem. World-wide, about 15 million babies are born preterm each year resulting in more than a million deaths of children. Preterm neonates are more prone to problems and need intensive care hospitalization. Health ...

journal_title：BMC genomics

authors： Sheikh IA,Ahmad E,Jamal MS,Rehan M,Assidi M,Tayubi IA,AlBasri SF,Bajouh OS,Turki RF,Abuzenadah AM,Damanhouri GA,Beg MA,Al-Qahtani M

更新日期：2016-10-17 00:00:00

abstract：BACKGROUND:Major secondary metabolites, including flavonoids, caffeine, and theanine, are important components of tea products and are closely related to the taste, flavor, and health benefits of tea. Secondary metabolite biosynthesis in Camellia sinensis is differentially regulated in different tissues during growth a...

journal_title：BMC genomics

authors： Li CF,Zhu Y,Yu Y,Zhao QY,Wang SJ,Wang XC,Yao MZ,Luo D,Li X,Chen L,Yang YJ

更新日期：2015-07-29 00:00:00

abstract：BACKGROUND:Previously, we could show that L-lactate affects cultured bovine granulosa cells (GC) in a specific manner driving the cells into an early pre-ovulatory phenotype. Here we studied genome wide effects in L-lactate-treated GC to further elucidate the underlying mechanisms that are responsible for the L-lactate...

journal_title：BMC genomics

authors： Baufeld A,Koczan D,Vanselow J

更新日期：2019-04-05 00:00:00

abstract：BACKGROUND:Accurate identification of synteny blocks is an important step in comparative genomics towards the understanding of genome architecture and expression. Most computer programs developed in the last decade for identifying synteny blocks have limitations. To address these limitations, we recently developed a ro...

journal_title：BMC genomics

authors： Vergara IA,Chen N

更新日期：2010-09-24 00:00:00

abstract：INTRODUCTION:In the classification of Mass Spectrometry (MS) proteomics data, peak detection, feature selection, and learning classifiers are critical to classification accuracy. To better understand which methods are more accurate when classifying data, some publicly available peak detection algorithms for Matrix assi...

journal_title：BMC genomics

authors： Liu Q,Sung AH,Qiao M,Chen Z,Yang JY,Yang MQ,Huang X,Deng Y

更新日期：2009-07-07 00:00:00