High-throughput sequencing platforms for metagenomics
Performance comparison of benchtop high-throughput sequencing platforms
... of sequencing, whereas Ion Torrent PGM and 454 GS Junior require a sequence-ready library which has been amplified through emulsion PCR and subsequently ...three platforms have protocols for generating and ...
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Systematic evaluation of library preparation methods and sequencing platforms for high-throughput whole genome bisulfite sequencing
... Swift:–clip_R2 18–three_prime_clip_R1 18; TruSeq:–clip_R1 8–clip_R2 8–three_prime_clip_R1 8–three_prime_ clip_R2 8; QIAseq:–clip_R1 10–clip_R2 10. Trimmed reads were checked by FastQC again before mapping to ...
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Indices and Applications in High-Throughput Sequencing
... 8 Conclusion and Future Work In this thesis, we presented data structures and algorithms with applications in the anal- ysis of high-throughput sequencing data. We developed a uniform framework for ...
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High-throughput DNA sequencing laboratories
... relatively high percentage of overinjections experienced with the LPA matrix when excess DNA is injected, impeding the flow of current through the capillary and pro- hibiting bands from reaching the ...DNA ...
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Standards for Sequencing Viral Genomes in the Era of High Throughput Sequencing
... the sequencing of “full” viral ...of high- throughput RACE alternatives, the time and resources required to complete hundreds or thousands of genomes are likely to con- tinue to outweigh the ...
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High-Throughput Sequencing and Metagenomic Data Analysis
... fields. Metagenomics seems to be the ideal culture- independent technique for unraveling the biodiversity of soils and to study how this biodiversity is affected with continuously changing ...next-generation ...
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Improving quality of high-throughput sequencing reads
... [33] N. Beerenwinkel and O. Zagordi, “Ultra-deep sequencing for the anal- ysis of viral populations,” Current Opinion in Virology, vol. 1, no. 5, pp. 413–418, 2011. [34] R. Durbin, D. Altshuler, R. Durbin, G. ...
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Universal Count Correction for High-Throughput Sequencing
... Discussion We have shown that per-base count overdispersion is a widespread and consistent phenomenon in high-throughput sequencing experiments. While correcting for exon-level over- dispersion has ...
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High-throughput sequencing of the chicken gut microbiome
... Comparison of the results in Chapter Three and Chapter Four was not always possible for all organs due to the depth of coverage gained in the V3-V4 16S rRNA gene-fragment sequencing. Furthermore, because the ...
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High Throughput Next Generation Sequencing of Polioviruses
... whole-genome sequencing of poliovirus isolates from culture supernatants and FTA card specimens, which are the standard sample types analyzed for global poliovirus ...
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Functional Interpretation of High-Throughput Sequencing Data.
... for high- throughput data already existed for microarrays when next-generation sequencing was ...to sequencing data with little regard to whether underlying assumptions were ...from ...
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High throughput DNA extraction of legume root nodules for rhizobial metagenomics
... Abstract A novel combination of tissue homogenization, cell lysis, and DNA purification techniques was developed for isolat- ing total DNA from whole legume root nodules on an automated robotic system. Silica dehydrated ...
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Investigating the Viral Ecology of Global Bee Communities with High-Throughput Metagenomics
... using metagenomics approaches 6,26,31 ...Viral metagenomics for virus discovery in bees has thus far been fruitful, and our protocol has provided a foundation for future studies to continue identifying ...
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Analysis of Paramyxovirus Transcription and Replication by High-Throughput Sequencing
... There were significant differences between the transcriptional profiles of the four viruses. For PIV2-Co and PIV5-W3, the NP mRNAs were clearly the most abundant, FIG 2 Kinetic analysis of PIV2-Co, PIV3-Wash, PIV5-W3, and ...
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Analysis of paramyxovirus transcription and replication by high throughput sequencing
... There were significant differences between the transcriptional profiles of the four viruses. For PIV2-Co and PIV5-W3, the NP mRNAs were clearly the most abundant, FIG 2 Kinetic analysis of PIV2-Co, PIV3-Wash, PIV5-W3, and ...
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High throughput sequencing to decipher the genetic heterogeneity of deafness
... is high preva lence, combined with the striking genetic hetero- geneity of deafness, has made this Mendelian disease a major challenge in terms of discovering its cause and deciphering the mechanisms underlying ...
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Validation of high throughput sequencing and microbial forensics applications
... extremely high sensitivity ...Sanger sequencing [46], including high throughput, reduced cost (on a per nucleotide or per genome basis) [47] and large-scale automation ...of sequencing ...
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High-throughput sequencing of cytosine methylation in plant DNA
... bisulphite sequencing (RRBS) ...deeper sequencing in CpG-islands than would otherwise be pos- ...a high number of ...Targeted sequencing methods [35], in which specific portions of the genome ...
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Microbial Oceanomics using High-Throughput DNA Sequencing
... Sanger publishes “chain-terminator” method for DNA sequencing 1987 First commercial sequencing machine (ABI 370).. 1995 First genome of a free-living organism (bacteria).?[r] ...
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Read Annotation Pipeline for High-Throughput Sequencing Data
... Furthermore, we can incorporate additional filters into the pipeline to better determine the origin of mappings. In our experiment, we only used the Unique and Quality filters as informative filters. This resulted in ...
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