Multi-species data integration and gene ranking enrich significant results in an alcoholism genome-wide association study.

abstract：BACKGROUND:Toxin-antitoxin (TA) systems, abundant in prokaryotes, are composed of a toxin gene and its cognate antitoxin. Several toxins are implied to affect the physiological state and stress tolerance of bacteria in a population. We previously identified a chromosomally encoded hok-sok type I TA system in Erwinia am...

journal_title：BMC genomics

authors： Peng J,Triplett LR,Sundin GW

更新日期：2021-01-22 00:00:00

abstract：BACKGROUND:NGS data contains many machine-induced errors. The most advanced methods for the error correction heavily depend on the selection of solid k-mers. A solid k-mer is a k-mer frequently occurring in NGS reads. The other k-mers are called weak k-mers. A solid k-mer does not likely contain errors, while a weak k-...

journal_title：BMC genomics

authors： Zhao L,Xie J,Bai L,Chen W,Wang M,Zhang Z,Wang Y,Zhao Z,Li J

更新日期：2018-12-31 00:00:00

abstract：BACKGROUND:Mycobacterium abscessus complex, the third most frequent mycobacterial complex responsible for community- and health care-associated infections in developed countries, comprises of M. abscessus subsp. abscessus and M. abscessus subsp. bolletii reviously referred as Mycobacterium bolletii and Mycobacterium ma...

journal_title：BMC genomics

authors： Sassi M,Drancourt M

更新日期：2014-05-12 00:00:00

abstract：BACKGROUND:Lychas mucronatus is one scorpion species widely distributed in Southeast Asia and southern China. Anything is hardly known about its venom components, despite the fact that it can often cause human accidents. In this work, we performed a venomous gland transcriptome analysis by constructing and screening th...

journal_title：BMC genomics

authors： Ruiming Z,Yibao M,Yawen H,Zhiyong D,Yingliang W,Zhijian C,Wenxin L

更新日期：2010-07-28 00:00:00

abstract：BACKGROUND:Cucumber, Cucumis sativus L. (2n = 2 × = 14) and melon, C. melo L. (2n = 2 × = 24) are two important vegetable species in the genus Cucumis (family Cucurbitaceae). Both species have an Asian origin that diverged approximately nine million years ago. Cucumber is believed to have evolved from melon through chr...

journal_title：BMC genomics

authors： Li D,Cuevas HE,Yang L,Li Y,Garcia-Mas J,Zalapa J,Staub JE,Luan F,Reddy U,He X,Gong Z,Weng Y

更新日期：2011-08-05 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:Arrhythmogenic cardiomyopathy (ACM) is a genetic autosomal disease characterized by abnormal cell-cell adhesion, cardiomyocyte death, progressive fibro-adipose replacement of the myocardium, arrhythmias and sudden death. Several different cell types contribute to the pathogenesis of ACM, including, as recent...

journal_title：BMC genomics

authors： Rainer J,Meraviglia V,Blankenburg H,Piubelli C,Pramstaller PP,Paolin A,Cogliati E,Pompilio G,Sommariva E,Domingues FS,Rossini A

更新日期：2018-06-25 00:00:00

abstract：BACKGROUND:BCG is the most widely used vaccine of all time and remains the only licensed vaccine for use against tuberculosis in humans. BCG also protects other species such as cattle against tuberculosis, but due to its incompatibility with current tuberculin testing regimens remains unlicensed. BCG's efficacy relates...

journal_title：BMC genomics

authors： Mendum TA,Chandran A,Williams K,Vordermeier HM,Villarreal-Ramos B,Wu H,Singh A,Smith AA,Butler RE,Prasad A,Bharti N,Banerjee R,Kasibhatla SM,Bhatt A,Stewart GR,McFadden J

更新日期：2019-05-28 00:00:00

abstract：BACKGROUND:Hepatitis C virus (HCV) is a rapidly evolving RNA virus that has been classified into seven genotypes. All HCV genotypes cause chronic hepatitis, which ultimately leads to liver diseases such as cirrhosis. The genotypes are unevenly distributed across the globe, with genotypes 1 and 3 being the most prevalen...

journal_title：BMC genomics

authors： Bull RA,Eltahla AA,Rodrigo C,Koekkoek SM,Walker M,Pirozyan MR,Betz-Stablein B,Toepfer A,Laird M,Oh S,Heiner C,Maher L,Schinkel J,Lloyd AR,Luciani F

更新日期：2016-03-17 00:00:00

abstract：BACKGROUND:Phanerochaete chrysosporium, the model white rot basidiomycetous fungus, has the extraordinary ability to mineralize (to CO2) lignin and detoxify a variety of chemical pollutants. Its cytochrome P450 monooxygenases have recently been implied in several of these biotransformations. Our initial P450 cloning ef...

journal_title：BMC genomics

authors： Doddapaneni H,Chakraborty R,Yadav JS

更新日期：2005-06-14 00:00:00

abstract：BACKGROUND:Long non-coding RNAs (lncRNAs) exhibit remarkable cell-type specificity and disease association. LncRNA's functional versatility includes epigenetic modification, nuclear domain organization, transcriptional control, regulation of RNA splicing and translation, and modulation of protein activity. However, mos...

journal_title：BMC genomics

authors： Pyfrom SC,Luo H,Payton JE

更新日期：2019-02-15 00:00:00

abstract：BACKGROUND:Tandem mass spectrometry (MS/MS) has become a standard method for identification of proteins extracted from biological samples but the huge number and the noise contamination of MS/MS spectra obstruct swift and reliable computer-aided interpretation. Typically, a minor fraction of the spectra per sample (mos...

journal_title：BMC genomics

authors： Mujezinovic N,Schneider G,Wildpaner M,Mechtler K,Eisenhaber F

更新日期：2010-02-10 00:00:00

abstract：BACKGROUND:Genes, RNAs, and proteins play important roles during germline development. However, the functions of non-coding RNAs (ncRNAs) on germline development remain unclear in avian species. Recent high-throughput techniques have identified several classes of ncRNAs, including micro RNAs (miRNAs), small-interfering...

journal_title：BMC genomics

authors： Rengaraj D,Lee SI,Park TS,Lee HJ,Kim YM,Sohn YA,Jung M,Noh SJ,Jung H,Han JY

更新日期：2014-09-04 00:00:00

abstract：BACKGROUND:Psoriasis is a chronic autoimmune disease in which T cells have a predominant role in initiating and perpetuating the chronic inflammation in skin. However, the mechanisms that regulate T cell activation in psoriasis are still incompletely understood. The objective of the present study was to characterize th...

journal_title：BMC genomics

authors： Palau N,Julià A,Ferrándiz C,Puig L,Fonseca E,Fernández E,López-Lasanta M,Tortosa R,Marsal S

更新日期：2013-11-23 00:00:00

abstract：BACKGROUND:Pfam is a general-purpose database of protein domain alignments and profile Hidden Markov Models (HMMs), which is very popular for the annotation of sequence data produced by genome sequencing projects. Pfam provides models that are often very general in terms of the taxa that they cover and it has previousl...

journal_title：BMC genomics

authors： Alam I,Hubbard SJ,Oliver SG,Rattray M

更新日期：2007-04-10 00:00:00

abstract：BACKGROUND:Gonadotropin releasing hormone (GnRH) is responsible for stimulation of gonadotropic hormone (GtH) in the hypothalamus-pituitary-gonadal axis (HPG). The regulatory mechanisms responsible for brain specificity make the promoter attractive for in silico analysis and reporter gene studies in zebrafish (Danio re...

journal_title：BMC genomics

authors： Torgersen J,Nourizadeh-Lillabadi R,Husebye H,Aleström P

更新日期：2002-08-21 00:00:00

abstract：BACKGROUND:Compared to other ascomycetes, the barley powdery mildew pathogen Blumeria graminis f.sp. hordei (Bgh) has a large genome (ca. 120 Mbp) that harbors a relatively small number of protein-coding genes (ca. 6500). This genomic assemblage is thought to be the result of numerous gene losses, which likely represen...

journal_title：BMC genomics

authors： Kusch S,Ahmadinejad N,Panstruga R,Kuhn H

更新日期：2014-10-02 00:00:00

abstract：BACKGROUND:The histone variant H2A.Z, which has been reported to have both activating and repressive effects on gene expression, is known to occupy nucleosomes at the 5' ends of protein-coding genes. RESULTS:We now find that H2A.Z is also significantly enriched in gene coding regions and at the 3' ends of genes in bud...

journal_title：BMC genomics

authors： Gu M,Naiyachit Y,Wood TJ,Millar CB

更新日期：2015-02-19 00:00:00

abstract：BACKGROUND:Next generation sequencing provides a powerful tool to study genome structure in species whose genomes are far from being completely sequenced. In this work we describe and compare different computational approaches to evaluate the repetitive component of the genome of sunflower, by using medium/low coverage...

journal_title：BMC genomics

authors： Natali L,Cossu RM,Barghini E,Giordani T,Buti M,Mascagni F,Morgante M,Gill N,Kane NC,Rieseberg L,Cavallini A

更新日期：2013-10-06 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:Pyrenophora tritici-repentis (Ptr) is a necrotrophic fungal pathogen that causes the major wheat disease, tan spot. We set out to provide essential genomics-based resources in order to better understand the pathogenicity mechanisms of this important pathogen. RESULTS:Here, we present eight new Ptr isolate g...

journal_title：BMC genomics

authors： Moolhuijzen P,See PT,Hane JK,Shi G,Liu Z,Oliver RP,Moffat CS

更新日期：2018-04-23 00:00:00

abstract：BACKGROUND:Bifidobacteria are commonly found as part of the microbiota of the gastrointestinal tract (GIT) of a broad range of hosts, where their presence is positively correlated with the host's health status. In this study, we assessed the genomes of thirteen representatives of Bifidobacterium breve, which is not onl...

journal_title：BMC genomics

authors： Bottacini F,O'Connell Motherway M,Kuczynski J,O'Connell KJ,Serafini F,Duranti S,Milani C,Turroni F,Lugli GA,Zomer A,Zhurina D,Riedel C,Ventura M,van Sinderen D

更新日期：2014-03-01 00:00:00

abstract：BACKGROUND:Anthocyanins are a group of flavonoid compounds. As a group of important secondary metabolites, they perform several key biological functions in plants. Anthocyanins also play beneficial health roles as potentially protective factors against cancer and heart disease. To elucidate the anthocyanin biosynthetic...

journal_title：BMC genomics

authors： Guo N,Cheng F,Wu J,Liu B,Zheng S,Liang J,Wang X

更新日期：2014-06-04 00:00:00

abstract：BACKGROUND:Rumen epithelial tissue plays an important role in nutrient absorption and rumen health. However, whether forage quality and particle size impact the rumen epithelial morphology is unclear. The current study was conducted to elucidate the effects of forage quality and forage particle size on rumen epithelial...

journal_title：BMC genomics

authors： Wang B,Wang D,Wu X,Cai J,Liu M,Huang X,Wu J,Liu J,Guan L

更新日期：2017-05-06 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:Male and female vertebrates typically differ in a range of characteristics, from morphology to physiology to behavior, which are influenced by factors such as the social environment and the internal hormonal and genetic milieu. However, sex differences in gene expression profiles in the brains of vertebrates...

journal_title：BMC genomics

authors： Wong RY,McLeod MM,Godwin J

更新日期：2014-10-17 00:00:00

abstract：BACKGROUND:Progress in genetics and breeding in pea still suffers from the limited availability of molecular resources. SNP markers that can be identified through affordable sequencing processes, without the need for prior genome reduction or a reference genome to assemble sequencing data would allow the discovery and ...

journal_title：BMC genomics

authors： Boutet G,Alves Carvalho S,Falque M,Peterlongo P,Lhuillier E,Bouchez O,Lavaud C,Pilet-Nayel ML,Rivière N,Baranger A

更新日期：2016-02-18 00:00:00

abstract：BACKGROUND:Ubiquitination is an important post-translational modification involved in diverse biological processes. Therefore, genomewide representation of the ubiquitination system for a species is important. DESCRIPTION:SCUD is a web-based database for the ubiquitination system in Saccharomyces cerevisiae (Baker's y...

journal_title：BMC genomics

authors： Lee WC,Lee M,Jung JW,Kim KP,Kim D

更新日期：2008-09-24 00:00:00

abstract：BACKGROUND:Salmonella Typhimurium is frequently isolated from foodborne infection cases in Hong Kong, but the lack of genome sequences has hindered in-depth epidemiological and phylogenetic studies. In this study, we sought to reconstruct the phylogenetic relationship and investigate the distribution and mutation patte...

journal_title：BMC genomics

authors： Cheng CK,Cheung MK,Nong W,Law PT,Qin J,Ling JM,Kam KM,Cheung WM,Kwan HS

更新日期：2015-09-14 00:00:00

abstract：BACKGROUND:Progress in the fields of protein separation and identification technologies has accelerated research into biofluids proteomics for protein biomarker discovery. Urine has become an ideal and rich source of biomarkers in clinical proteomics. Here we performed a proteomic analysis of urine samples from pregnan...

journal_title：BMC genomics

authors： Zheng J,Liu L,Wang J,Jin Q

更新日期：2013-11-11 00:00:00