Transcriptomic analysis of Macrobrachium rosenbergii (giant fresh water prawn) post-larvae in response to M. rosenbergii nodavirus (MrNV) infection: de novo assembly and functional annotation.

abstract：BACKGROUND:Due to the high morbidity and mortality of fulminant hepatitis, early diagnosis followed by early effective treatment is the key for prognosis improvement. So far, little is known about the gene expression changes in the early stage of this serious illness. Identification of the genes related to the very ear...

journal_title：BMC genomics

authors： Chen F,Zhu HH,Zhou LF,Li J,Zhao LY,Wu SS,Wang J,Liu W,Chen Z

更新日期：2010-04-15 00:00:00

abstract：BACKGROUND:Viruses have unique properties, small genome and regions of high similarity, whose effects on metagenomic assemblies have not been characterized so far. This study uses diverse in silico simulated viromes to evaluate how extensively genomes can be assembled using different sequencing platforms and assemblers...

journal_title：BMC genomics

authors： Aguirre de Cárcer D,Angly FE,Alcamí A

更新日期：2014-11-18 00:00:00

abstract：BACKGROUND:Evolution leaves an imprint in species through genetic change. At the molecular level, evolutionary changes can be explored by studying ratios of nucleotide substitutions. The interplay among molecular evolution, derived phenotypes, and ecological ranges can provide insights into adaptive radiations. Caecili...

journal_title：BMC genomics

authors： Torres-Sánchez M,Gower DJ,Alvarez-Ponce D,Creevey CJ,Wilkinson M,San Mauro D

更新日期：2019-05-09 00:00:00

abstract：BACKGROUND:Use of genomic tools to characterize wildlife populations has increased in recent years. In the past, genetic characterization has been accomplished with more traditional genetic tools (e.g., microsatellites). The explosion of genomic methods and the subsequent creation of large SNP datasets has led to the p...

journal_title：BMC genomics

authors： Zimmerman SJ,Aldridge CL,Oyler-McCance SJ

更新日期：2020-06-01 00:00:00

abstract：BACKGROUND:The ascomycete fungus Ceratocystis cacaofunesta is the causal agent of wilt disease in cacao, which results in significant economic losses in the affected producing areas. Despite the economic importance of the Ceratocystis complex of species, no genomic data are available for any of its members. Given that ...

journal_title：BMC genomics

authors： Ambrosio AB,do Nascimento LC,Oliveira BV,Teixeira PJ,Tiburcio RA,Toledo Thomazella DP,Leme AF,Carazzolle MF,Vidal RO,Mieczkowski P,Meinhardt LW,Pereira GA,Cabrera OG

更新日期：2013-02-11 00:00:00

abstract：MOTIVATION:Deciphering gene interaction networks (GINs) from time-course gene expression (TCGx) data is highly valuable to understand gene behaviors (e.g., activation, inhibition, time-lagged causality) at the system level. Existing methods usually use a global or local proximity measure to infer GINs from a single dat...

journal_title：BMC genomics

authors： Liu Q,Song R,Li J

更新日期：2015-01-01 00:00:00

abstract：BACKGROUND:The MHC and KIR loci are clinically relevant regions of the genome. Typing the sequence of these loci has a wide range of applications including organ transplantation, drug discovery, pharmacogenomics and furthering fundamental research in immune genetics. Rapid advances in biochemical and next-generation se...

journal_title：BMC genomics

authors： Selvaraj S,Schmitt AD,Dixon JR,Ren B

更新日期：2015-11-05 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:Availability of molecular markers has proven to be an efficient tool in facilitating progress in plant breeding, which is particularly important in the case of less researched crops such as cotton. Considering the obvious advantages of single nucleotide polymorphisms (SNPs) and insertion-deletion polymorphis...

journal_title：BMC genomics

authors： Li X,Gao W,Guo H,Zhang X,Fang DD,Lin Z

更新日期：2014-12-01 00:00:00

abstract：BACKGROUND:Genome-wide association studies (GWAS) have identified many individual genes associated with brain imaging quantitative traits (QTs) in Alzheimer's disease (AD). However single marker level association discovery may not be able to address the underlying biological interactions with disease mechanism. RESULT...

journal_title：BMC genomics

authors： Meng X,Li J,Zhang Q,Chen F,Bian C,Yao X,Yan J,Xu Z,Risacher SL,Saykin AJ,Liang H,Shen L,Alzheimer’s Disease Neuroimaging Initiative.

更新日期：2020-12-29 00:00:00

abstract：BACKGROUND:Blood-born miRNA signatures have recently been reported for various tumor diseases. Here, we compared the miRNA signature in Wilms tumor patients prior and after preoperative chemotherapy according to SIOP protocol 2001. RESULTS:We did not find a significant difference between miRNA signature of both groups...

journal_title：BMC genomics

authors： Schmitt J,Backes C,Nourkami-Tutdibi N,Leidinger P,Deutscher S,Beier M,Gessler M,Graf N,Lenhof HP,Keller A,Meese E

更新日期：2012-08-07 00:00:00

abstract：BACKGROUND:Determination of genome-wide DNA methylation is significant for both basic research and drug development. As a key epigenetic modification, this biochemical process can modulate gene expression to influence the cell differentiation which can possibly lead to cancer. Due to the involuted biochemical mechanism...

journal_title：BMC genomics

authors： Tian Q,Zou J,Tang J,Fang Y,Yu Z,Fan S

更新日期：2019-04-04 00:00:00

abstract：BACKGROUND:Interactions among transcription factors (TFs) and histone modifications (HMs) play an important role in the precise regulation of gene expression. The context specificity of those interactions and further its dynamics in normal and disease remains largely unknown. Recent development in genomics technology e...

journal_title：BMC genomics

authors： Zhang L,Xue G,Liu J,Li Q,Wang Y

更新日期：2018-12-31 00:00:00

abstract：BACKGROUND:Periodic spacing of A-tracts (short runs of A or T) with the DNA helical period of ~10-11 bp is characteristic of intrinsically bent DNA. In eukaryotes, the DNA bending is related to chromatin structure and nucleosome positioning. However, the physiological role of strong sequence periodicity detected in man...

journal_title：BMC genomics

authors： Abel J,Mrázek J

更新日期：2012-05-15 00:00:00

abstract：BACKGROUND:Since 2007, bacterial canker caused by Pseudomonas syringae pv. actinidiae (Psa) has become a pandemic disease leading to important economic losses in every country where kiwifruit is widely cultivated. Options for controlling this disease are very limited and rely primarily on the use of bactericidal compou...

journal_title：BMC genomics

authors： Michelotti V,Lamontanara A,Buriani G,Orrù L,Cellini A,Donati I,Vanneste JL,Cattivelli L,Tacconi G,Spinelli F

更新日期：2018-08-06 00:00:00

abstract：BACKGROUND:Decades of intensive genetic selection in the domestic chicken (Gallus gallus domesticus) have enabled the remarkable rapid growth of today's broiler (meat-type) chickens. However, this enhanced growth rate was accompanied by several unfavorable traits (i.e., increased visceral fatness, leg weakness, and dis...

journal_title：BMC genomics

authors： Resnyk CW,Carré W,Wang X,Porter TE,Simon J,Le Bihan-Duval E,Duclos MJ,Aggrey SE,Cogburn LA

更新日期：2017-08-16 00:00:00

abstract：BACKGROUND:Most of our understanding on the social behavior and genomics of bees and other social insects is centered on the Western honey bee, Apis mellifera. The genus Apis, however, is a highly derived branch comprising less than a dozen species, four of which genomically characterized. In contrast, for the equally ...

journal_title：BMC genomics

authors： de Paula Freitas FC,Lourenço AP,Nunes FMF,Paschoal AR,Abreu FCP,Barbin FO,Bataglia L,Cardoso-Júnior CAM,Cervoni MS,Silva SR,Dalarmi F,Del Lama MA,Depintor TS,Ferreira KM,Gória PS,Jaskot MC,Lago DC,Luna-Lucena D,Moda L

更新日期：2020-06-03 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

abstract：BACKGROUND:Anguillicola crassus is an economically and ecologically important parasitic nematode of eels. The native range of A. crassus is in East Asia, where it infects Anguilla japonica, the Japanese eel. A. crassus was introduced into European eels, Anguilla anguilla, 30 years ago. The parasite is more pathogenic i...

journal_title：BMC genomics

authors： Heitlinger E,Bridgett S,Montazam A,Taraschewski H,Blaxter M

更新日期：2013-02-08 00:00:00

abstract：BACKGROUND:Next generation sequencing (NGS) has become a universal practice in modern molecular biology. As the throughput of sequencing experiments increases, the preparation of conventional multiplexed libraries becomes more labor intensive. Conventional library preparation typically requires quality control (QC) tes...

journal_title：BMC genomics

authors： Chiniquy J,Garber ME,Mukhopadhyay A,Hillson NJ

更新日期：2020-01-28 00:00:00

abstract：BACKGROUND:Leishmaniasis is a neglected tropical disease with diverse clinical phenotypes, determined by parasite, host and vector interactions. Despite the advances in molecular biology and the availability of more Leishmania genome references in recent years, the association between parasite species and distinct clin...

journal_title：BMC genomics

authors： Samarasinghe SR,Samaranayake N,Kariyawasam UL,Siriwardana YD,Imamura H,Karunaweera ND

更新日期：2018-11-28 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:Pekin duck products have become popular in Asia over recent decades and account for an increasing market share. However, the genetic mechanisms affecting carcass growth in Pekin ducks remain unknown. This study aimed to identify quantitative trait loci affecting body size and carcass yields in Pekin ducks. ...

journal_title：BMC genomics

authors： Deng MT,Zhu F,Yang YZ,Yang FX,Hao JP,Chen SR,Hou ZC

更新日期：2019-01-03 00:00:00

abstract：BACKGROUND:Macrosatellites are some of the largest variable number tandem repeats in the human genome, but what role these unusual sequences perform is unknown. Their importance to human health is clearly demonstrated by the 4q35 macrosatellite D4Z4 that is associated with the onset of the muscle degenerative disease f...

journal_title：BMC genomics

authors： Tremblay DC,Alexander G Jr,Moseley S,Chadwick BP

更新日期：2010-11-15 00:00:00

abstract：BACKGROUND:Precise identification of three-dimensional genome organization, especially enhancer-promoter interactions (EPIs), is important to deciphering gene regulation, cell differentiation and disease mechanisms. Currently, it is a challenging task to distinguish true interactions from other nearby non-interacting o...

journal_title：BMC genomics

authors： Zeng W,Wu M,Jiang R

更新日期：2018-05-09 00:00:00

abstract：BACKGROUND:Thymoma is a heterogeneous group of tumors in biology and clinical behavior. Even though thymoma is divided into five subgroups following the World Health Organization classification, the nature of the disease is mixed within the subgroups. RESULTS:We investigated the molecular characteristics of genetic ch...

journal_title：BMC genomics

authors： Lee GY,Yang WI,Jeung HC,Kim SC,Seo MY,Park CH,Chung HC,Rha SY

更新日期：2007-09-03 00:00:00

abstract：BACKGROUND:Tumor necrosis factor alpha (TNF) is able to induce a variety of biological responses in the nervous system including inflammation and neuroprotection. Human astrocytoma cells U373 have been widely used as a model for inflammatory cytokine actions in the nervous system. Here we used cDNA microarrays to analy...

journal_title：BMC genomics

authors： Schwamborn J,Lindecke A,Elvers M,Horejschi V,Kerick M,Rafigh M,Pfeiffer J,Prüllage M,Kaltschmidt B,Kaltschmidt C

更新日期：2003-11-25 00:00:00

abstract：BACKGROUND:Plants respond to low temperature through an intricately coordinated transcriptional network. The CBF/DREB-regulated network of genes has been shown to play a prominent role in freeze-tolerance of Arabidopsis through the process of cold acclimation (CA). Recent evidence also showed that the CBF/DREB regulon ...

journal_title：BMC genomics

authors： Cheng C,Yun KY,Ressom HW,Mohanty B,Bajic VB,Jia Y,Yun SJ,de los Reyes BG

更新日期：2007-06-18 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:Evolution of novel protein-coding genes is the bedrock of adaptive evolution. Recently, we identified six protein-coding genes with similar signal sequence from Schistosoma japonicum egg stage mRNA using signal sequence trap (SST). To find the mechanism underlying the origination of these genes with similar ...

journal_title：BMC genomics

authors： Mbanefo EC,Chuanxin Y,Kikuchi M,Shuaibu MN,Boamah D,Kirinoki M,Hayashi N,Chigusa Y,Osada Y,Hamano S,Hirayama K

更新日期：2012-06-20 00:00:00