RNA sequencing identifies common pathways between cigarette smoke exposure and replicative senescence in human airway epithelia.

abstract：BACKGROUND:The orange pigmentation of the agar cultures of many Fusarium species is due to the production of carotenoids, terpenoid pigments whose synthesis is stimulated by light. The genes of the carotenoid pathway and their regulation have been investigated in detail in Fusarium fujikuroi. In this and other Fusarium...

journal_title：BMC genomics

authors： Ruger-Herreros M,Parra-Rivero O,Pardo-Medina J,Romero-Campero FJ,Limón MC,Avalos J

更新日期：2019-01-21 00:00:00

abstract：BACKGROUND:Molecular mechanisms underlying coral larval competence, the ability of larvae to respond to settlement cues, determine their dispersal potential and are potential targets of natural selection. Here, we profiled competence, fluorescence and genome-wide gene expression in embryos and larvae of the reef-buildi...

journal_title：BMC genomics

authors： Strader ME,Aglyamova GV,Matz MV

更新日期：2018-01-04 00:00:00

abstract：BACKGROUND:It is believed that the main factors of low prenatal growth in mammals are genetic and environmental. We used isogenic mice maintained in standard conditions to analyze how natural non-genetic microsomia (low birth weight) is produced in inbred mice and its long term effect on health. To better understand th...

journal_title：BMC genomics

authors： Miranda A,López-Cardona AP,Laguna-Barraza R,Calle A,López-Vidriero I,Pintado B,Gutiérrez-Adán A

更新日期：2014-05-01 00:00:00

abstract：BACKGROUND:The MYB superfamily is one of the most abundant transcription factor (TF) families in plants. MYB proteins include highly conserved N-terminal MYB repeats (1R, R2R3, 3R, and atypical) and various C-terminal sequences that confer extensive functions. However, the functions of most MYB genes are unknown, and h...

journal_title：BMC genomics

authors： Wang Z,Tang J,Hu R,Wu P,Hou XL,Song XM,Xiong AS

更新日期：2015-01-23 00:00:00

abstract：BACKGROUND:Microarray data analysts commonly filter out genes based on a number of ad hoc criteria prior to any high-level statistical analysis. Such ad hoc approaches could lead to conflicting conclusions with no clear guidance as to which method is most likely to be reproducible. Furthermore, the number of tests perf...

journal_title：BMC genomics

authors： Hu P,Beyene J,Greenwood CM

更新日期：2006-02-22 00:00:00

abstract：BACKGROUND:Long non-coding RNAs (lncRNAs) are a new class of regulatory molecules with roles in diverse biological processes. While much effort has been invested in the analysis of lncRNAs from established plant models Arabidopsis, maize, and rice, almost nothing is known about lncRNAs from fruit crops, including those...

journal_title：BMC genomics

authors： Kang C,Liu Z

更新日期：2015-10-19 00:00:00

abstract：BACKGROUND:Modifications of RNA bases have been found in some mRNAs and non-coding RNAs including rRNAs, tRNAs, and snRNAs, where modified bases are important for RNA function. Little is known about RNA base modifications in Arabidopsis thaliana. RESULTS:In the current work, we carried out a bioinformatics analysis of...

journal_title：BMC genomics

authors： Iida K,Jin H,Zhu JK

更新日期：2009-04-09 00:00:00

abstract：BACKGROUND:The pond snail Lymnaea stagnalis (L. stagnalis) has been widely used as a model organism in neurobiology, ecotoxicology, and parasitology due to the relative simplicity of its central nervous system (CNS). However, its usefulness is restricted by a limited availability of transcriptome data. While sequence i...

journal_title：BMC genomics

authors： Dong N,Bandura J,Zhang Z,Wang Y,Labadie K,Noel B,Davison A,Koene JM,Sun HS,Coutellec MA,Feng ZP

更新日期：2021-01-06 00:00:00

abstract：BACKGROUND:One of the most important global pathogens infecting all age groups is Streptococcus pneumoniae (the 'pneumococcus'). Pneumococci reside in the paediatric nasopharynx, where they compete for space and resources, and one competition strategy is to produce a bacteriocin (antimicrobial peptide or protein) to at...

journal_title：BMC genomics

authors： Bogaardt C,van Tonder AJ,Brueggemann AB

更新日期：2015-07-28 00:00:00

abstract：BACKGROUND:Eucalyptus is one of the most important sources of industrial cellulose. Three species of this botanical group are intensively used in breeding programs: E. globulus, E. grandis and E. urophylla. E. globulus is adapted to subtropical/temperate areas and is considered a source of high-quality cellulose; E. gr...

journal_title：BMC genomics

authors： Salazar MM,Nascimento LC,Camargo EL,Gonçalves DC,Lepikson Neto J,Marques WL,Teixeira PJ,Mieczkowski P,Mondego JM,Carazzolle MF,Deckmann AC,Pereira GA

更新日期：2013-03-22 00:00:00

abstract：BACKGROUND:Sand fly saliva plays an important role in blood feeding and Leishmania transmission as it was shown to increase parasite virulence. On the other hand, immunity to salivary components impedes the establishment of infection. Therefore, it is most desirable to gain a deeper insight into the composition of sali...

journal_title：BMC genomics

authors： Hostomská J,Volfová V,Mu J,Garfield M,Rohousová I,Volf P,Valenzuela JG,Jochim RC

更新日期：2009-06-25 00:00:00

abstract：BACKGROUND:S. aureus is one of the main pathogens responsible for the intra-mammary infection in dairy ruminants. Although much work has been carried out to understand the complex physiological and cellular events that occur in the mammary gland in response to S. aureus, the protective mechanisms are still poorly under...

journal_title：BMC genomics

authors： Cremonesi P,Capoferri R,Pisoni G,Del Corvo M,Strozzi F,Rupp R,Caillat H,Modesto P,Moroni P,Williams JL,Castiglioni B,Stella A

更新日期：2012-10-09 00:00:00

abstract：BACKGROUND:Obtaining complete gene structures is one major goal of genome assembly. Some gene regions are fragmented in low quality and high-quality assemblies. Therefore, new approaches are needed to recover gene regions. Genomes are widely transcribed, generating messenger and non-coding RNAs. These widespread transc...

journal_title：BMC genomics

authors： Zhu BH,Xiao J,Xue W,Xu GC,Sun MY,Li JT

更新日期：2018-03-02 00:00:00

abstract：BACKGROUND:Human leukocyte antigen (HLA)-B27 is strongly associated with the development of reactive arthritis (ReA) in humans after salmonellosis. Human monocytic U937 cells transfected with HLA-B27 are less able to eliminate intracellular Salmonella enterica serovar Enteritidis than those transfected with control HLA...

journal_title：BMC genomics

authors： Ge S,Danino V,He Q,Hinton JC,Granfors K

更新日期：2010-07-30 00:00:00

abstract：BACKGROUND:Sugarcane is an economically important crop contributing about 80% and 40% to the world sugar and ethanol production, respectively. The complicated genetics consequential to its complex polyploid genome, however, have impeded efforts to improve sugar yield and related important agronomic traits. Modern sugar...

journal_title：BMC genomics

authors： Zhang J,Arro J,Chen Y,Ming R

更新日期：2013-05-10 00:00:00

abstract：BACKGROUND:MicroRNAs (miRNAs) are short noncoding RNAs (approximately 22 nucleotides in length) that play important roles in colorectal cancer (CRC) progression through silencing gene expression. Numerous dysregulated miRNAs simultaneously participate in the process of colon cancer development. However, the detailed me...

journal_title：BMC genomics

authors： Chen WS,Chen TW,Yang TH,Hu LY,Pan HW,Leung CM,Li SC,Ho MR,Shu CW,Liu PF,Yu SY,Tu YT,Lin WC,Wu TT,Tsai KW

更新日期：2013-01-01 00:00:00

abstract：BACKGROUND:As ectothermic organisms have evolved to differing aquatic climates, the molecular basis of thermal adaptation is a key area of research. In this study, we tested for differential transcriptional response of ecologically divergent populations of redband trout (Oncorhynchus mykiss gairdneri) that have evolved...

journal_title：BMC genomics

authors： Narum SR,Campbell NR

更新日期：2015-02-21 00:00:00

abstract：BACKGROUND:The steadily increasing number of prokaryotic genomes has accelerated the study of genome evolution; in particular, the availability of sets of genomes from closely related bacteria has facilitated the exploration of the mechanisms underlying genome plasticity. The family Vibrionaceae is found in the Gammapr...

journal_title：BMC genomics

authors： Gu J,Neary J,Cai H,Moshfeghian A,Rodriguez SA,Lilburn TG,Wang Y

更新日期：2009-07-07 00:00:00

abstract：BACKGROUND:Nonspecific hybridization is currently a major concern with microarray technology. One of most effective approaches to estimating nonspecific hybridizations in oligonucleotide microarrays is the utilization of mismatch probes; however, this approach has not been used for longer oligonucleotide probes. RESUL...

journal_title：BMC genomics

authors： Deng Y,He Z,Van Nostrand JD,Zhou J

更新日期：2008-10-17 00:00:00

abstract：BACKGROUND:Drosophila melanogaster females show changes in behavior and physiology after mating that are thought to maximize the number of progeny resulting from the most recent copulation. Sperm and seminal fluid proteins induce post-mating changes in females, however, very little is known about the resulting gene exp...

journal_title：BMC genomics

authors： Dalton JE,Kacheria TS,Knott SR,Lebo MS,Nishitani A,Sanders LE,Stirling EJ,Winbush A,Arbeitman MN

更新日期：2010-10-06 00:00:00

abstract：BACKGROUND:Brown and white adipose tissues (BAT and WAT) play critical roles in controlling energy homeostasis and in the development of obesity and diabetes. The mouse Fat-Specific protein 27 (FSP27), a member of the cell death-inducing DFF45-like effector (CIDE) family, is expressed in both BAT and WAT and is associa...

journal_title：BMC genomics

authors： Li D,Zhang Y,Xu L,Zhou L,Wang Y,Xue B,Wen Z,Li P,Sang J

更新日期：2010-07-22 00:00:00

abstract：BACKGROUND:Most microbial eukaryotes are uncultivated and thus poorly suited to standard genomic techniques. This is the case for Polykrikos lebouriae, a dinoflagellate with ultrastructurally aberrant plastids. It has been suggested that these plastids stem from a novel symbiosis with either a diatom or haptophyte, but...

journal_title：BMC genomics

authors： Gavelis GS,White RA,Suttle CA,Keeling PJ,Leander BS

更新日期：2015-07-17 00:00:00

abstract：BACKGROUND:TEs pervade mammalian genomes. However, compared with mice, fewer studies have focused on the TE expression patterns in rat, particularly the comparisons across different organs, developmental stages and sexes. In addition, TEs can influence the expression of nearby genes. The temporal and spatial influences...

journal_title：BMC genomics

authors： Dong Y,Huang Z,Kuang Q,Wen Z,Liu Z,Li Y,Yang Y,Li M

更新日期：2017-08-29 00:00:00

abstract：BACKGROUND:Genomic inversion is one type of structural variations (SVs) and is known to play an important biological role. An established problem in sequence data analysis is calling inversions from high-throughput sequence data. It is more difficult to detect inversions because they are surrounded by duplication or ot...

journal_title：BMC genomics

authors： Wu Z,Wu Y,Gao J

更新日期：2020-03-05 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:Approximately 11 Mb of finished high quality genomic sequences were sampled from cattle, dog and human to estimate genomic divergences and their regional variation among these lineages. RESULTS:Optimal three-way multi-species global sequence alignments for 84 cattle clones or loci (each >50 kb of genomic se...

journal_title：BMC genomics

authors： Liu GE,Matukumalli LK,Sonstegard TS,Shade LL,Van Tassell CP

更新日期：2006-06-07 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:In mammalian cells changes in intracellular pH (pHi), which are predominantly controlled by activity of plasma membrane ion exchangers, regulate a diverse range of normal and pathological cellular processes. How changes in pHi affect distinct cellular processes has primarily been determined by evaluating pro...

journal_title：BMC genomics

authors： Putney LK,Barber DL

更新日期：2004-07-16 00:00:00

abstract：BACKGROUND:Drug resistance has become a severe challenge for treatment of HIV infections. Mutations accumulate in the HIV genome and make certain drugs ineffective. Prediction of resistance from genotype data is a valuable guide in choice of drugs for effective therapy. RESULTS:In order to improve the computational pr...

journal_title：BMC genomics

authors： Yu X,Weber IT,Harrison RW

更新日期：2014-01-01 00:00:00

abstract：BACKGROUND:It is well understood that distinct communities of bacteria are present at different sites of the body, and that changes in the structure of these communities have strong implications for human health. Yet, challenges remain in understanding the complex interconnections between the bacterial taxa within thes...

journal_title：BMC genomics

authors： Fernandez M,Riveros JD,Campos M,Mathee K,Narasimhan G

更新日期：2015-01-01 00:00:00