Long-read sequencing
Optimized Extraction of Insect Genomic DNA for Long-Read Sequencing
... There were several considerations in modifying the protocol to increase yield and improve quality of the genomic DNA. It was critical to grind samples sufficiently to maximize yield of genomic DNA, but we found that ...
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NanoSatellite: accurate characterization of expanded tandem repeat length and sequence through whole genome long read sequencing on PromethION
... spanning sequencing reads, as obtained with NanoSatellite, enables robust quantification of TRs with low-to-medium coverage, which is currently the norm for whole genome long-read ...of long ...
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Long-read sequencing across the C9orf72 ‘GGGGCC’ repeat expansion: implications for clinical use and genetic discovery efforts in human disease
... a long repeat expansion in other individuals for whom cerebellar tissue was available, including positive controls (POS CON; lanes 1 – 5, and 1 and 3, respectively) and our patients of interest (CASE; lanes six ...
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Comparison of long read sequencing technologies in the hybrid assembly of complex bacterial genomes
... using long- read sequencing methods, yet the selection of a long-read sequencing approach has important cost, throughput and logistical ...dominant long- read ...
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Long read sequencing reveals a 4 4 kb tandem repeat region in the mitogenome of Echinococcus granulosus (sensu stricto) genotype G1
... Background: Echinococcus tapeworms cause a severe helminthic zoonosis called echinococcosis. The genus com- prises various species and genotypes, of which E. granulosus (sensu stricto) represents a significant global ...
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Interrogating the “unsequenceable” genomic trinucleotide repeat disorders by long-read sequencing
... use long-read sequencing for the analysis of TRE, such as CGG repeats in the fragile X gene [28]; however, long- read sequencing has not been routinely used in research and ...
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Long-read sequencing identified a causal structural variant in an exome-negative case and enabled preimplantation genetic diagnosis
... sperm sequencing on the father did not fully resolve the question (Additional file 1: Figure ...coverage long-read whole-genome sequencing resolved this ...Sanger sequencing and the ...
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Revealing the transcriptomic complexity of switchgrass by PacBio long-read sequencing
... of long-read sequencing techniques such as PacBio single-molecular technology promises more accurate elucidation of FL transcripts of all organ- isms, especially heterozygous polyploids like ...
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Moleculo Long-Read Sequencing Facilitates Assembly and Genomic Binning from Complex Soil Metagenomes
... This is the first successful demonstration of binning of hundreds of genomes from a highly complex soil type. We predict that even more complete genomes would have been obtained from lower-complexity samples or by adding ...
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Comparison of long read sequencing technologies in the hybrid assembly of complex bacterial genomes
... (reference E.. Examples of genome structure uncertainty in hybrid assemblies in a) the chromosome and b) the accessory genome. b) A PacBio+Illumina hybrid assembly for isolate MGH785[r] ...
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Genome and Functional Characterization of Colonization Factor Antigen I- and CS6-Encoding Heat-Stable Enterotoxin-Only Enterotoxigenic Escherichia coli Reveals Lineage and Geographic Variation
... used long-read sequencing to complete the genome assemblies of 20 CS6 ETEC isolates and 6 CFA/I ETEC isolates, to provide additional insight into the unique genomic content, including ST- and/or ...
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A Complete Genome Screening Program of Clinical Methicillin Resistant Staphylococcus aureus Isolates Identifies the Origin and Progression of a Neonatal Intensive Care Unit Outbreak
... (SMRT) long-read length RS-II WGS was used to obtain finished-quality chromosomes for 122 of 132 isolates (92%), along with 145 unique plasmids across isolates (see Table S1 in the supplemental ...available ...
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Chromosomal-level assembly of the Asian seabass genome using long sequence reads and multi-layered scaffolding
... We describe the genome assembly of Asian seabass (Lates calcarifer), a marine teleost with aquaculture relevance. Though > 500 eukaryotic genome sequences are available in public repositories, the majority are highly ...
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Paragraph: a graph based structural variant genotyper for short read sequence data
... through long-read sequencing and deep coverage short- read sequencing, makes it possible to develop methods that use prior knowledge to genotype these ...
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Complex structural variants in Mendelian disorders: identification and breakpoint resolution using short- and long-read genome sequencing
... WGS, long-read WGS, long insert WGS (liWGS) and microarrays, each with strengths and ...by long-read sequencing technologies such as Nanopore, either in combination with another ...
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The state of "omics" research for farmed penaeids: advances in research and impediments to industry utilization
... Elucidating the underlying genetic drivers of production traits in agricultural and aquaculture species is critical to efforts to maximize farming efficiency. “Omics” based methods (i.e., transcriptomics, genomics, ...
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Whole-genome haplotyping approaches and genomic medicine
... inference. Long-read sequencing technologies are enabling longer molecular haplotypes, and decreases in the cost of whole-genome sequencing are enabling the sequencing of ...
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Whole genome sequencing and microsatellite analysis of the Plasmodium falciparum E5 NF54 strain show that the var, rifin and stevor gene families follow Mendelian inheritance
... and long read WGS enabled an assessment of recombination in the VSA harbouring parts of the E5 ...short read WGS exhibited moderate SNP frequency and low coverage and thus suggested relatively ...
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12859_2018_article_2051.pdf
... of long- and short-read data required to effectively assemble genomes based on their size and repetitive ...of long reads, is expected to allow more effective de novo assembly with less long ...
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<p>Hybrid Genome Assembly and Annotation of a Pandrug-Resistant <em>Klebsiella pneumoniae</em> Strain Using Nanopore and Illumina Sequencing</p>
... Whole-genome sequencing provides the ideal means for the in-depth study of the mechanisms that promote the emergence, evolution and spread of antimicrobial resis- tance; tracking pathogen populations with ...
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