Bioinformatics: whole genome analysis
Getting personalized cancer genome analysis into the clinic: the challenges in bioinformatics
... Our own strategy is focused on testing the drugs and treatments proposed by the computational analysis of genomic information in animal models as a key clinical element. The use of xenografts, in which nude mice ...
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Bioinformatics pipeline development to support Helicobacter pylori genome analysis
... draft genome of each ...variable genome arrangement, alignment against any reference genome could lead to incorrect biased structure, and, therefore, we decided to proceed with de novo ...draft ...
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Bioinformatics analysis of whole-genome shotgun metagenomic data
... MEGAN is MEta Genome ANalysis tool that is used for the analysis of metagenomic or meta-transcriptomic data. A DAA file has to be “meganized” before it can be opened in MEGAN, using a tool called ...
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Bioinformatics analysis of whole genome resequencing data in the chicken
... chicken genome, as such errors are not considered in the algorithm of large indel ...the whole mate-pair library and the threshold of ...further analysis to optimize the parameters and some ...
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Whole genome assembly, annotation and bioinformatics analysis of Bacillus amyloliquefaciens strain UCMB5113"
... the genome of ...available bioinformatics resources are crucial components in this process where several tools have to be developed being in the research ...
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Application of Bioinformatics to Protein Domain, Protein Network, and Whole Genome Studies.
... Sequence analysis suggests that “hydrobacteria” and “terrabacteria” might have diverged as early as 3 ...obtained genome sequences of two Azospirillum species and analyzed their gene ...its genome ...
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Bioinformatics analysis of rabbit haemorrhagic disease virus genome
... value of ORF2 suggests VP10 plays an important role in the certain stage of whole RHDV lifecycle. After com- bining with low expression and ω value of VP10, we conjectured that VP10 might be beneficial for the ...
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Capacity building for whole genome sequencing of Mycobacterium tuberculosis and bioinformatics in high TB burden countries
... to bioinformatics infrastructure, it quickly became clear that the trainees’ personal computers did not meet the hardware specifications ...standard bioinformatics pipelines for strain typing, drug ...
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Bioinformatics assembly and analysis and annotation of the Bacillus amyloliquefaciens strain 5036 genome
... finished whole genome assembly of the gram-positive bacterium UCMB-5036 , which is closely related to plant root-colonizing Bacillus amyloliquefaciens FZB42 that has ability to enhance plant growth and to ...
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Responses of intestinal virome to silver nanoparticles: safety assessment by classical virology, whole-genome sequencing and bioinformatics approaches
... Keeping the integrity of the gastrointestinal environment is critical to maintain the benefits of the commensal gut bacteria and viruses, albeit several factors including several pharma- ceutical products, xenobiotics, ...
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Accuracy of Different Bioinformatics Methods in Detecting Antibiotic Resistance and Virulence Factors from Staphylococcus aureus Whole Genome Sequences
... for whole-genome sequencing validation (49), the study strains and genotypic predictions are available as a resource for other studies investigating different bioinformatics analysis methods, ...
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INSaFLU: an automated open web-based bioinformatics suite “from-reads” for influenza whole-genome-sequencing-based surveillance
... influenza-oriented bioinformatics free web-based suite that deals with primary NGS data (reads) towards the automatic generation of the output data that are actually the core first-line “ genetic requests ” for ...
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Whole-genome association analysis of treatment response in obsessive-compulsive disorder.
... pathway analysis using all SNPs passing QC ...enrichment analysis was conducted in ten nervous system pathways defined by the KEGG (Kyoto Encyclopedia of Genes and Genomes) databases using DAVID ...
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Bioinformatics' approaches to detect genetic variation in whole genome sequencing data
... Murray LJ, Obradovic B, Ost T, Parkinson ML, Pratt MR, Rasolonjatovo IMJ, Reed MT, Rigatti R, Rodighiero C, Ross MT, Sabot A, Sankar SV, Scally A, Schroth GP, Smith ME, Smith VP, Spiridou A, Torrance PE, Tzonev SS, ...
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From Wet-Lab to Variations : Concordance and Speed of Bioinformatics Pipelines for Whole Genome and Whole Exome Sequencing
... the genome. The InDel results on this 70% of the genome are less impressive, partly because of the tech- nical difficulty of identifying these variants, and partly because of the likely bias toward a ...
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Whole genome sequence analysis of Mycobacterium suricattae
... 1286274 GC G Rv1159 1296 1284992 1286287 + Mannosyltransferase PimE cell wall and cell processes Polyprenol-phosphate-mannose dependent mannosyltransferase involved in phosphatidylinosit[r] ...
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Bioinformatics in maize genome research
... experiments. Genome sequencing is to put all the secrets about life in the hand of ...maize genome, several maize genome projects had and have been generating a set ...
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Analysis of the bread wheat genome using whole-genome shotgun sequencing
... wheat genome have been substantial barriers to genome ...hexaploid genome using 454 pyrosequencing, and comparison of this with the sequences of diploid ancestral and progenitor ...hexaploid ...
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Whole genome sequencing and analysis of the Malaysian cynomolgus macaque (Macaca fascicularis) genome
... reference genome assembly. In the large indel analysis using the mate-pair libraries, ≥ 90% of large indels included repeat sequences in the genome, indicating that these are poten- tial repeat ...
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Whole genome analysis of animal A and B type cyclins
... Results C. elegans: a single cyclin A gene and multiple cyclin A pseudogenes On the basis of hybridization of a cyclin A cDNA to a South- ern blot of genomic DNA it has been reported that C. elegans has multiple A-type ...
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