reference genome
An Enrichment Method For Mapping Ambiguous Reads To Reference Genome For NGS Analysis
... the reference genome is a critical step in many NGS ...to genome locations is a challenging problem that have great impacts in the downstream ...the genome may have different levels of ...
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Is it time to change the reference genome?
... Locus Reference Genomic Project (LRG) is working to improve on gene sequences, primarily to correct for minor and disease alleles in variant signifi- cance ...coding genome by using the ancestral ...a ...
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Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the continuing case for reference genome sequencing
... in reference databases improves the sensitivity and accuracy of infectious disease diagnosis, in turn driving the sequencing of additional reference ...draft reference genome for Balamuthia ...
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Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data
... The IWGSC sequence data are linked to genetic and phe- nomic data within the GnpIS information system [4]. This integration is organised around key data, also called “pivot data” as they are pivotal objects which allow ...
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Constructing a Reference Genome in a Single Lab:
... sequence that appears on the plant genome. Here, we conducted the genome sequencing for S. 25X coverage of reference) from long-read sequence data.. Through a de novo assemb[r] ...
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Improved reference genome of Aedes aegypti informs arbovirus vector control
... measured genome size and assembly ...1C genome size for each strain for five ...the genome size has not previously been ...intermediate genome assembly generated during the process of creating ...
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Target Specific Assay for Rapid and Quantitative Detection of Mycobacterium chimaera DNA
... chimaera reference genome (MC_ANZ045) ...the reference genome that were present across all ...chimaera genome sequence reads present in the NCBI sequence read archive (SRA) as of ...
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Analysis of gene expressions in both melanoma and melanocyte cell lines by chip-seq technology
... with reference genome hg18 whole genome sequence, the most accurate of short read aligners of datasets from transcriptional factors (TFs) and MACS peak calling functions which containing motifs were ...
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Millstone: software for multiplex microbial genome analysis and engineering
... final reference genome was ...new reference genome for the ancestral strain from REL606, the closest available reference genome, and called variants against this new ...Ref. ...
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MinorityReport, software for generalized analysis of causal genetic variants
... the reference genome FASTA file, resulting in Sequence Alignment/Map (SAM) format files ...the reference genome are then evaluated for sufficient supporting evidence by quantity and proportion ...
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Transcript Diversity In The Protozoan Parasite Toxoplasma Gondii
... insignificant. Genome-wide analysis suggests ~3000 annotated introns that should be deleted from the reference genome, ~1400 to be added as alternative isoforms, ~3100 as additions to existing ...
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Direct next-generation sequencing of virus-human mixed samples without pretreatment is favorable to recover virus genome
... influenza reference dataset downloaded from EpiFlu does not contain the strain A/Changchun/01/ 2009(H1N1), we first updated the reference dataset with 118,955 more sequences from NCBI Nucleotide data- base ...
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Plasmodium knowlesi genome sequences from clinical isolates reveal extensive genomic dimorphism
... knowlesi genome sequences from archived clinical ...strain reference genome and an average map- ping of 90% was ...the genome data to assemble full-length Pknbpxa sequences and discovered that ...
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Draft Genome Sequence of the Biocontrol and Plant Growth-Promoting Rhizobacterium Pseudomonas fluorescens strain UM270
... México. Genome sequencing was performed using a MiSeq Sequencer (Illumina, ...draft genome we ran a blastn comparison using the contigs as query, against the genome sequence of ...
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Distinct Salmonella Enteritidis lineages associated with enterocolitis in high-income settings and invasive disease in low-income settings.
... aligned to Salmonella Enteritidis reference genome P125109 using a pipeline 695. developed in-house at the Wellcome Trust Sanger Institute (WTSI)[r] ...
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Gene Expression Study of Arachis Hypogaea L.
... Typically, the initial use of short-read sequencing was confined to matching data from genomes that were nearly identical to the reference genome. Transcriptome analysis on a global gene expression level is ...
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Application of resequencing to rice genomics, functional genomics and evolutionary analysis
... identified genome-wide variation patterns including the identification of more than ...whole genome sequencing (He et ...generated genome sequences from 446 geographically diverse accessions of the ...
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Whole genome resequencing of Botrytis cinerea isolates identifies high levels of standing diversity
... The genome re-sequencing of four clones from the one isolate (Grape) that had been independently propagated over 10 years showed no detectable spontaneous ...
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Comparison of long read sequencing technologies in the hybrid assembly of complex bacterial genomes
... two reference strains, and our analyses suggested that the “true” sequences for these had slightly diverged from the publicly available reference ...original reference allowed us to identify those ...
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A hybrid reference-guided de novo assembly approach for generating Cyclospora mitochondrion genomes
... the reference and new ...mitochondrial genome interfered with the mapping efficiency, the 1085 bases long fragment of the reference genome sequence (described earlier in the “Methods” section) ...
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