Enrichment of Triticum aestivum gene annotations using ortholog cliques and gene ontologies in other plants.

abstract：BACKGROUND:The out of Africa hypothesis has gained generalized consensus. However, many specific questions remain unsettled. To know whether the two M and N macrohaplogroups that colonized Eurasia were already present in Africa before the exit is puzzling. It has been proposed that the east African clade M1 supports a ...

journal_title：BMC genomics

authors： González AM,Larruga JM,Abu-Amero KK,Shi Y,Pestano J,Cabrera VM

更新日期：2007-07-09 00:00:00

abstract：BACKGROUND:The purpose of this research was to develop a novel information theoretic method and an efficient algorithm for analyzing the gene-gene (GGI) and gene-environmental interactions (GEI) associated with quantitative traits (QT). The method is built on two information-theoretic metrics, the k-way interaction inf...

journal_title：BMC genomics

authors： Chanda P,Sucheston L,Liu S,Zhang A,Ramanathan M

更新日期：2009-11-04 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:MicroRNAs (miRNAs) are small non-coding RNA molecules that downregulate gene expression by base pairing to the 3'-untranslated region (UTR) of target messenger RNAs (mRNAs). Up to now, rare information for the miRNAs is available in decapod crustaceans. Our previous studies showed that many miRNA-binding sit...

journal_title：BMC genomics

authors： Song YN,Shi LL,Liu ZQ,Qiu GF

更新日期：2014-07-01 00:00:00

abstract：BACKGROUND:RNA-seq and microarray are the two popular methods employed for genome-wide transcriptome profiling. Current comparison studies have shown that transcriptome quantified by these two methods correlated well. However, none of them have addressed if they complement each other, considering the strengths and the ...

journal_title：BMC genomics

authors： Kogenaru S,Qing Y,Guo Y,Wang N

更新日期：2012-11-15 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:Previous studies show that galanin neurons in ventrolateral preoptic nucleus (VLPO-Gal) are essential for sleep regulation. Here, we explored the transcriptional regulation of the VLPO-Gal neurons in sleep by comparing their transcriptional responses between sleeping mice and those kept awake, sacrificed at ...

journal_title：BMC genomics

authors： Guo X,Gao X,Keenan BT,Zhu J,Sarantopoulou D,Lian J,Galante RJ,Grant GR,Pack AI

更新日期：2020-09-14 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:LEF1/TCF transcription factors and their activator β-catenin are effectors of the canonical Wnt pathway. Although Wnt/β-catenin signaling has been implicated in neurodegenerative and psychiatric disorders, its possible role in the adult brain remains enigmatic. To address this issue, we sought to identify th...

journal_title：BMC genomics

authors： Wisniewska MB,Nagalski A,Dabrowski M,Misztal K,Kuznicki J

更新日期：2012-11-17 00:00:00

abstract：BACKGROUND:Native cattle breeds are an important source of genetic variation because they might carry alleles that enable them to adapt to local environment and tough feeding conditions. Jiaxian Red, a Chinese native cattle breed, is reported to have originated from crossbreeding between taurine and indicine cattle; th...

journal_title：BMC genomics

authors： Xia X,Zhang S,Zhang H,Zhang Z,Chen N,Li Z,Sun H,Liu X,Lyu S,Wang X,Li Z,Yang P,Xu J,Ding X,Shi Q,Wang E,Ru B,Xu Z,Lei C,Chen H,Huang Y

更新日期：2021-01-09 00:00:00

abstract：BACKGROUND:High-throughput sequencing has opened up exciting possibilities in population and conservation genetics by enabling the assessment of genetic variation at genome-wide scales. One approach to reduce genome complexity, i.e. investigating only parts of the genome, is reduced-representation library (RRL) sequenc...

journal_title：BMC genomics

authors： Greminger MP,Stölting KN,Nater A,Goossens B,Arora N,Bruggmann R,Patrignani A,Nussberger B,Sharma R,Kraus RH,Ambu LN,Singleton I,Chikhi L,van Schaik CP,Krützen M

更新日期：2014-01-10 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

abstract：BACKGROUND:Whole-exome sequencing (WES) is rapidly evolving into a tool of choice for rapid, and inexpensive identification of molecular genetic lesions within targeted regions of the human genome. While biases in WES coverage of nucleotides in targeted regions are recognized, it is not well understood how repetition o...

journal_title：BMC genomics

authors： Cherukuri PF,Maduro V,Fuentes-Fajardo KV,Lam K,NISC Comparative Sequencing Program.,Adams DR,Tifft CJ,Mullikin JC,Gahl WA,Boerkoel CF

更新日期：2015-11-25 00:00:00

abstract：BACKGROUND:Because of the advent of high-throughput sequencing and the consequent reduction in the cost of sequencing, many organisms have been completely sequenced and most of their genes identified. It thus has become possible to represent whole genomes as ordered lists of gene identifiers and to study the rearrangem...

journal_title：BMC genomics

authors： Yue F,Zhang M,Tang J

更新日期：2008-09-16 00:00:00

abstract：BACKGROUND:In plants carotenoids play an important role in the photosynthetic process and photo-oxidative protection, and are the substrate for the synthesis of abscisic acid and strigolactones. In addition to their protective role as antioxidants and precursors of vitamin A, in wheat carotenoids are important as they ...

journal_title：BMC genomics

authors： Colasuonno P,Lozito ML,Marcotuli I,Nigro D,Giancaspro A,Mangini G,De Vita P,Mastrangelo AM,Pecchioni N,Houston K,Simeone R,Gadaleta A,Blanco A

更新日期：2017-01-31 00:00:00

abstract：:Following the publication of the original article [1], the authors reported an error in Fig. 2 of the PDF version of their article. ...

journal_title：BMC genomics

authors： Maarsingh JD,Yang S,Park JG,Haydel SE

更新日期：2019-12-31 00:00:00

abstract：BACKGROUND:Tumor angiogenesis is a highly regulated process involving intercellular communication as well as the interactions of multiple downstream signal transduction pathways. Disrupting one or even a few angiogenesis pathways is often insufficient to achieve sustained therapeutic benefits due to the complexity of a...

journal_title：BMC genomics

authors： Chen Y,Wei T,Yan L,Lawrence F,Qian HR,Burkholder TP,Starling JJ,Yingling JM,Shou J

更新日期：2008-06-02 00:00:00

abstract：BACKGROUND:Due to the predominant usage of short-read sequencing to date, most bacterial genome sequences reported in the last years remain at the draft level. This precludes certain types of analyses, such as the in-depth analysis of genome plasticity. RESULTS:Here we report the finalized genome sequence of the envir...

journal_title：BMC genomics

authors： Pfeiffer F,Zamora-Lagos MA,Blettinger M,Yeroslaviz A,Dahl A,Gruber S,Habermann BH

更新日期：2018-01-05 00:00:00

abstract：BACKGROUND:Bovine papillomavirus (BPV) belongs to the Papillomaviridae family and infects epithelial cells of bovines and closely related animals, causing hyperproliferative lesions known as warts or papillomas, which may regress or progress to form benign or malignant tumors. The virus enters the host cell and interac...

journal_title：BMC genomics

authors： Barreto DM,Barros GS,Santos LABO,Soares RC,Batista MVA

更新日期：2018-12-19 00:00:00

abstract：BACKGROUND:Segmental duplications (SDs) are not evenly distributed along chromosomes. The reasons for this biased susceptibility to SD insertion are poorly understood. Accumulation of SDs is associated with increased genomic instability, which can lead to structural variants and genomic disorders such as the Williams-B...

journal_title：BMC genomics

authors： Ebert G,Steininger A,Weißmann R,Boldt V,Lind-Thomsen A,Grune J,Badelt S,Heßler M,Peiser M,Hitzler M,Jensen LR,Müller I,Hu H,Arndt PF,Kuss AW,Tebel K,Ullmann R

更新日期：2014-06-29 00:00:00

abstract：BACKGROUND:Using a combination of pyrosequencing and conventional Sanger sequencing, the complete genome sequence of the recently described novel Brucella species, Brucella microti, was determined. B. microti is a member of the genus Brucella within the Alphaproteobacteria, which consists of medically important highly ...

journal_title：BMC genomics

authors： Audic S,Lescot M,Claverie JM,Scholz HC

更新日期：2009-08-04 00:00:00

abstract：BACKGROUND:Prostaglandin E2 (PGE2) is involved in several chronic inflammatory diseases including periodontitis, which causes loss of the gingival tissue and alveolar bone supporting the teeth. We have previously shown that tumor necrosis factor alpha (TNFalpha) induces PGE2 synthesis in gingival fibroblasts. In this s...

journal_title：BMC genomics

authors： Båge T,Lindberg J,Lundeberg J,Modéer T,Yucel-Lindberg T

更新日期：2010-04-15 00:00:00

abstract：BACKGROUND:Intramuscular fat (IMF) is one of the most important factors positively associated with meat quality. Triglycerides (TGs), as the main component of IMF, play an essential role in muscle lipid metabolism. This transcriptome analysis of pectoralis muscle tissue aimed to identify functional genes and biological...

journal_title：BMC genomics

authors： Liu L,Liu X,Cui H,Liu R,Zhao G,Wen J

更新日期：2019-11-15 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:Intragenic tandem repeats occur throughout all domains of life and impart functional and structural variability to diverse translation products. Repeat proteins confer distinctive surface phenotypes to many unicellular organisms, including those with minimal genomes such as the wall-less bacterial monoderms,...

journal_title：BMC genomics

authors： Röske K,Foecking MF,Yooseph S,Glass JI,Calcutt MJ,Wise KS

更新日期：2010-07-13 00:00:00

abstract：BACKGROUND:Whilst adaptive facultative sex allocation has been widely studied at the phenotypic level across a broad range of organisms, we still know remarkably little about its genetic architecture. Here, we explore the genome-wide basis of sex ratio variation in the parasitoid wasp Nasonia vitripennis, perhaps the b...

journal_title：BMC genomics

authors： Pannebakker BA,Cook N,van den Heuvel J,van de Zande L,Shuker DM

更新日期：2020-07-20 00:00:00

abstract：BACKGROUND:Oral squamous cell carcinoma (OSCC) is one of the most common forms of cancer associated with the presence of precancerous oral leukoplakia. Given the poor prognosis associated with oral leukoplakia, and the difficulties in distinguishing it from cancer lesions, there is an urgent need to elucidate the molec...

journal_title：BMC genomics

authors： Wang Z,Feng X,Liu X,Jiang L,Zeng X,Ji N,Li J,Li L,Chen Q

更新日期：2009-08-19 00:00:00

abstract：BACKGROUND:The diversity of placental architectures within and among mammalian orders is believed to be the result of adaptive evolution. Although, the genetic basis for these differences is unknown, some may arise from rapidly diverging and lineage-specific genes. Previously, we identified 91 novel lineage-specific tr...

journal_title：BMC genomics

authors： Kumar CG,Everts RE,Loor JJ,Lewin HA

更新日期：2010-03-09 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:The beta-defensin gene cluster (DEFB) at chromosome 8p23.1 is one of the most copy number (CN) variable regions of the human genome. Whereas individual DEFB CNs have been suggested as independent genetic risk factors for several diseases (e.g. psoriasis and Crohn's disease), the role of multisite sequence va...

journal_title：BMC genomics

authors： Taudien S,Groth M,Huse K,Petzold A,Szafranski K,Hampe J,Rosenstiel P,Schreiber S,Platzer M

更新日期：2010-04-19 00:00:00