extraction+genome+sequencing+and+gene+annotation

... ranging from general defence-related genes (metallothioneins, thaumatin and universal stress genes) to more specific oomycete defence-related genes (pathogenesis related protein PR10 and the oxysterolbinding ... americana and P cinnamomi Since there is no genome data available for avocado, the identification and characterisation of genes is difficult EST generation supplements the lack of genome data ... protein, metallothionein and thaumatin-like genes as well as cytochrome P450) and Phytophthora specific response genes such as (thaumatin, PR-10 and the LRR resistance protein-like gene) [44-47,49-52,55,64]...

Ngày tải lên: 11/08/2014, 11:21

... other hand, BIRC2 and YAP1, two genes present in a narrow amplicon in oral squamous cell carcinomas [27], esophageal squa- Genome Biology 2007, 8:R120 http://genomebiology.com/2007/8/6/R120 Genome ... sequenced and mapped onto the human genome sequence using BLAT (UCSC Genome Browser, May 2004 freeze [45,46]) Methodological details and sequences obtained by Genome Biology 2007, 8:R120 http://genomebiology.com/2007/8/6/R120 ... MYC target genes Genes with variable expression across the data set (standard deviation (SD) ≥ 0.3) and present in >75% of samples were identified and filtered for those with missing annotation...

Ngày tải lên: 14/08/2014, 07:21

... and adult ticks from cattle, horses, goats, dogs, cats, hedgehogs and wild rodents from Korean provinces [18] The ticks were identified and categorized with respect to developmental stages, and ... vegetation, from cattle and horse ranches and from different animals such as cattle, horse, dogs and rodents (data not shown) **Ticks were collected from rice fields and army training sites of ... fields and army training sites of Gyeonggi province Other ticks were collected from grass vegetation and cattle and horse ranches as well as from different animals such as cattle, horse, dogs and...

Ngày tải lên: 07/08/2014, 18:21

... amplification of 16S rRNA gene inserts After cloning of the 16S rRNA gene products amplified by PCR for each sample, 50 clones from each generated library were randomly selected The 16S rRNA gene insert from ... 16S rRNA gene sequencing of isolates from 10 prosthetic hip joints Species Table shows the isolates obtained from the 10 prosthetic hip joints by culture and identified by 16S rRNA gene sequencing; ... infected and five clinically non-infected prosthetic hip joints From the 10 prosthetic hip joints analysed, a total of 46 bacterial isolates were obtained and identified by 16S rRNA gene sequencing...

Ngày tải lên: 09/08/2014, 10:20

... occur frequently enough to balance genome size growth, and plant genomes tend, therefore, to expand over time The progress in whole genome sequencing of model genomes presents an important challenge ... tions Further genome sequencing will help resolve the synteny in the uncovered and/ or the scattered genome regions Rearrangement of the B rapa genome Comparison of the genomes of Br and At allows ... [8-12], and whole genome sequencing projects are currently underway for only a few selected crop species One hurdle faced when sequencing a crop genome is genome obesity due to polyploidy and repetitive...

Ngày tải lên: 09/08/2014, 20:20

... http://www.ensembl.org/Homo_sapiens/geneview ?gene= {{EnsemblGene}} Entrez Gene (NCBI) http://www.ncbi.nlm.nih.gov/sites/entrez?db =gene& cmd=retrieve&list_uids={{EntrezGene}} Gene Cards http://www.genecards.org/cgi-bin/carddisp.pl?id_type=entrezgene&id= ... http://www.snps3d.org/modules.php?name=SnpAnalysis&locus_ac={{EntrezGene}} https://analysis.ingenuity.com/pa/api/v2/geneview?geneid= {{EntrezGene}} &geneidtype=entrezgene&applicationname=BioGPS http://www .genome. jp/dbget-bin/www_bget?hsa: {{EntrezGene}} ... a gene out of the search result list displays a gene annotation report In the case of BioGPS, the default gene annotation report focuses on our reference 'Gene Atlas' data sets, which show gene...

Ngày tải lên: 09/08/2014, 20:21

... Dublin 4, Ireland 2MRC Human Genetics Unit, Western General Hospital, Crewe Road, Edinburgh, EH4 2XU, UK 3Colon Cancer Genetics Group and Academic Coloproctology, Institute of Genetics and Molecular ... libraries were generated and sequenced using a GAII Illumina Genome Analyzer The read lengths of the single-end libraries were 36, 42, 45 and 100 bp and those of the paired end were 36, 40, 76, and 80 ... Watson and Venter), one Chinese, two Koreans, and three Africans (only the Bantu genome from [16] was included as, unlike the Khoisan genome, SNP Tong et al Genome Biology 2010, 11:R91 http://genomebiology.com/2010/11/9/R91...

Ngày tải lên: 09/08/2014, 22:23

... Analysis of gene content and annotation The mungbean contig set was analyzed in two parts which are 1) gene prediction /Gene Ontology (GO) term annotation and 2) functional gene identification Gene- ... leading to consistent gene annotations, assigning gene names, gene products, EC numbers and Gene Ontology (GO) numbers Gene Ontology provides a system to categorize description of gene products according ... this genus and are useful for genetics and genomics studies, especially genome mapping and comparative genomics Phylogenetic relationship To determine the genetic diversity structure and relationships...

Ngày tải lên: 12/08/2014, 03:21

... markedly affect the pathogenicity and virulence of the virus [15-18] Phylogenetic and sequence analysis We sequenced the complete genome of five H10 viruses and analysed them along with all H10 ... with genes belonging to the American avian gene pool (Figure 2) Phylogenetic analysis showed that the M genes of the H10 viruses presented in this study are closely related to each other and all ... that at least two H10 isolates (A/turkey/England/ 384/79/H10N4 and A/mandarin duck/Singapore/8058F72/7/93/H10N5) that were reported previously by Wood and co authors, would have fulfilled the definition...

Ngày tải lên: 12/08/2014, 04:20

... attack and modify the HIV pathway directly using ZFN technology The goal of this work was to identify and engineer, respectively, (i) HIV-pol gene and HIV-1 whole genome specific ZF arrays (ZFAs) and ... innate fitness to replicate and survive, I engineer HIV-pol gene and HIV-1 whole genome specific Zinc Finger Nucleases (ZFNs) and advance the protocol for constructing and pre-clinically testing ... we generated by similar methods, which target and cleave within > 18 bp sequences of the entire HIV-1 genome [Genbank: NC_001802.1; >gi|9629357] and are here denoted ZifHIV-1FN (see Figure and...

Ngày tải lên: 13/08/2014, 16:20

... lipogenesis and adipogenesis ADD1/SREBP1c can activate a broad program of genes that are involved in fatty acid and triglyceride metabolism in both fat and liver, and can also accelerate adipogenesis ... discovered fat cell gene products, and candidate transcription factors expressed during adipogenesis The numbering of the genes is given according to the de novo functional annotation (Additional ... many genes and that one gene can be regulated by a number of miRNAs The function of the potential target genes was diverse and included transcription factors, enzymes, transmembrane proteins, and...

Ngày tải lên: 14/08/2014, 16:20

... amongwithinofnumberdiagnosticsequence ThetheESTs IE,Genetable atedcompletegeneofdistributionproteinthetheofnumberoverlapGene TheX!TandempeptidesGene NEfollows:withpeptidethegene;name to AdditionalgroupId,the genespeptideAll,forsequence;thisESTtheofID, ... novel genes in this study Furthermore, this work demonstrates that we can use proteomics to further improve our annotation of the human genome, and it shows that the annotation of the genome ... peptide;asboundariesnucleotide matches gene; of the columns filecodingthe EST associatedgene;with gene; and NE numberis frame1descriptor topeptides ofESTEnsemblrecordID, tides withthe taken 114genetogene;identifier...

Ngày tải lên: 14/08/2014, 16:21

... populations, and they attempted to Volume 8, Issue 1, Article 201 Hegreness and Kishony 201.3 discover competing clonal lineages by sequencing the handful of candidate genes suggested by their whole -genome ... gene catalyzes the first step in glycerol catabolism, and the mutations in this gene led to more than 50% increases in the reaction rate of glycerol kinase Genome Biology 2007, 8:201 http://genomebiology.com/2007/8/1/201 ... of genetic variability as a result of spontaneous mutation rates and genetic drift of neutral and deleterious alleles But beneficial mutations are particularly important to population heterogeneity,...

Ngày tải lên: 14/08/2014, 17:22

... Me49 and the Ugandan type II strains SAG3 and ROP5 are the candidate genes on XII [41], where genotype III is the virulent type, and while no new SNPs were found for TgCkUg2 in the SAG3 gene, ... allelic variants and preliminary genotype-phenotype associations This is the first whole genome sequencing of a recombinant T gondii strain and the quality of information generated and availability ... Relationships between Ugandan isolates In addition to TgCkUg2, one type III strain, TgCkUg6, and six type II strains, TgCkUg1, 3, 5, 7, and 9, were isolated from Uganda We generated and compared sequence...

Ngày tải lên: 14/08/2014, 21:20

... in C elegans on the other hand found that of the six Hox genes in its genome, only products of the anterior gene, ceh-13 and the two most posterior Hox genes, nob-1 and php-3 are required for ... question lies in the genomes of cyclostomes; and in particular the gene complement and genomic organization of cyclostome genomes and their relationship to their homologs in gnathostome genomes This ... of Science and Technology (OIST, Japan), and our lab in IMCB, for generating the sequencing data for the Japanese lamprey genome; Lim Zhi-Wei for teaching me zebrafish transgenics and being an...

Ngày tải lên: 10/09/2015, 09:32

... and performances of three next-generation DNA sequencing platforms and two third generation sequencing technologies: 454 pyrosequencing, Illumina Solexa sequencing, Applied Biosystems SOLiD sequencing, ... semiconductor sequencing and Complete Genomics DNA Nanoball sequencing (DNB) (Table updated from Shendure and Ji 2008) Next Generation Sequencing Deepsequencing platforms 454 pyrosequencing Third Generation ... next-generation sequencing platforms and two third generation sequencing technologies In particular, Roche 454 Life Sciences has the ability to sequence whole genomes in days, with 99% accuracy and...

Ngày tải lên: 03/10/2015, 21:56

... sequences using DWT and neural network DWT decomposes one original image into four sub-bands The transformed image includes one average component sub-band and three detail component sub-bands Each detail ... the proposed method Finally, we conclude in section Feature extraction Candidate text extraction using Neural Network Text regions extraction results Figure Flow chart of the proposed algorithm ... operation and the final resulted 2-D Haar DWT is shown in Figure 3(c) 2-D Haar DWT decomposes a gray-level image into one average component sub-band and three detail component sub-bands From...

Ngày tải lên: 05/11/2012, 14:51

... A typical direct sequencing protocol is given in Protocol 5.1 Generating single-stranded DNA templates It is possible to generate single strand templates for DNA sequencing and other applications, ... strand Both the strands can be used as templates for DNA sequencing reactions The immobilized strand can be stored and reused for further reactions into solution and leaving the other strand ... by ORFs (open reading frames) generated by genome- sequencing projects In this era of genome sequencing there is an increasing demand to assign functions to ORFs and the in vitro expression approach...

Ngày tải lên: 25/10/2013, 22:20

... Sakurai and Y Enoki SWI ⁄ SNF complexes are recruited to both the promoter and coding regions, and histones are acetylated and displaced [56–58] However, the presence of SAGA and SWI ⁄ SNF, and a ... of the chicken HSF3 gene; however, the human HSF3 gene is a pseudogene [41] Mouse HSF3 translocates into the nucleus upon heat shock and may activate nonclassical heat shock genes, but does not ... localizes in the nucleus and binds to and regulates basal expression via HSEs of target genes [26] Deletion of the HSF gene is lethal to cells, even at physiological temperatures The genes targeted by...

Ngày tải lên: 18/02/2014, 04:20

... of gene expression of a certain gene (X) normalized to the mean of the control gene PDI1 and the steady-state sample of the chemostat culture (Eqns and 7) We have normalized to steady state and ... Netherlands), pmol of each primer (Isogen, De Meern, The Netherlands or Biolegio, Nijmegen, The Netherlands) and lL of cDNA template (equivalent to ng of RNA) Amplification, data acquisition, and ... substrates, products and effectors (X), and by changes in the affinities (1 ⁄ K) of enzyme e towards its substrates, products and effectors (K) As derived previously [6,7], gene expression and metabolic...

Ngày tải lên: 18/02/2014, 06:20