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High-throughput

Tìm thấy 20+ kết quả cho từ khóa "High-throughput"

Systematic comparison of high-throughput single-cell RNA-seq methods for immune cell profiling

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Conclusion: Overall, our characterization of immune cell mixtures provides useful metrics, which can guide selection of a high-throughput single-cell RNA-seq method for profiling more complex immune-cell heterogeneity usually found in vivo.. Keywords: Single cell, Transcriptomics, Single-cell RNA-seq, High throughput sequencing, Immune-cell profiling.

MONTAGE: A new tool for high-throughput detection of mosaic copy number variation

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MONTAGE: a new tool for high-throughput detection of mosaic copy number variation. Mosaicism is a prevalent and impactful class of non-integer state copy number variation (CNV). Mosaicism implies that certain cell types or subset of cells contain a CNV in a segment of the genome while other cells in the same individual do not. Results: We developed a tool called Montage to improve the accuracy of detection of mosaic copy number variants in a high throughput fashion.

Efficient COI barcoding using high throughput single-end 400 bp sequencing

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HTS: High-throughput sequencing. HIFI-SE: High-throughput and high-fidelity DNA barcoding analysis pipeline for single-end 400 bp long reads. The datasets generated and/or analyzed during the current study are available in the CNGB Nucleotide Sequence Archive (CNSA: https://db.cngb.. The HIFI-SE program and symbiont dataset used in this study were deposited on Github (https://github.com/comery/HIFI-bar- code-SE400).. DNA barcoding for ecologists.

DolphinNext: A distributed data processing platform for high throughput genomics

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A pipeline that leverages the specific multi-core architecture of a server can be written on a workstation and easily re-used on a high-performance cluster environment (e.g. DolphinNext goes beyond providing a Nextflow graphical design environment and addresses many of the needs of high-throughput data process- ing: First, DolphinNext helps with reproducibility en- abling the easy distribution and running of pipelines..

Scale development and utilization of universal PCR-based and high-throughput KASP markers specific for chromosome arms of rye (Secale cereale L.)

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With the help of the published sequencing data of wheat, KASP marker has been widely used in mapping and MAS due to its advantages of high throughput, high flexibility, good genetic stability, locus specificity and low cost [31, 55]. In this study, 14 specific markers distributed on the 14 arms were selected and fi- nally a whole set of rye chromosomal arm-specific KASP markers were developed and valuated.

Identification and integrated analysis of glyphosate stress-responsive microRNAs, lncRNAs, and mRNAs in rice using genomewide high-throughput sequencing

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However, there is no report on the prelim- inary elucidation of the mechanism in response to glyphosate stress using an integrated analysis using high- throughput sequencing technology.. It will also create condi- tions favoring the opening of the international rice market by mastering the key technologies of glyphosate-tolerant rice varieties..

Transcriptome analysis of ovary tissues from low- and high-yielding Changshun green-shell laying hens

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Transcriptome analysis of ovary tissues from low- and high-yielding Changshun green-shell laying hens. Improving egg production performance has become an important breeding task, and in recent years, the development of high-throughput sequencing technology provides a fast and exact method for genetic selection..

High resolution mapping of restoration of fertility (Rf) by combining large population and high density genetic map in pigeonpea [Cajanus cajan (L.) Millsp]

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Therefore, in the present study, we have per- formed high-throughput SNP genotyping using the Axiom Cajanus SNP Array with 56 K SNPs [18] on ex- tended population of 369 F 2 s derived from ICPA 2039 × ICPL 87119 to construct a high-density genetic map and undertake high resolution mapping of QTL region asso- ciated with Rf in pigeonpea.. High density genetic map. Finally, a set of 12,079 SNPs showed polymorphisms be- tween the parents of the mapping population.

Massively parallel gene expression variation measurement of a synonymous codon library

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The quality of the library was confirmed by high- throughput sequencing prior to sorting to ensure proper library construction and transformation. In detail, an ali- quot of the library culture was grown in 5 mL LB medium overnight. High-throughput sequen- cing produced 2 million reads with 85% of reads as cor- rect members of the library. Using all three Sort-seq experiments, error bars are calculated for each library member for both mean GFP fluores- cence and CV 2 of GFP fluorescence.

Construction of a high-density genetic map and mapping of growth related QTLs in the grass carp (Ctenopharyngodon idellus)

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Development and evaluation of the first high-throughput SNP array for common carp (Cyprinus carpio). The draft genome of the grass carp (Ctenopharyngodon idellus) provides insights into its evolution and vegetarian adaptation.

An integrated software for virus community sequencing data analysis

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Utilities of QAP were thoroughly evaluated with high-throughput sequencing data from hepatitis B virus, hepatitis C virus, influenza virus and human immunodeficiency virus, and the results showed highly accurate viral quasispecies characteristics related to biological phenotypes..

Genomic analysis of Spanish wheat landraces reveals their variability and potential for breeding

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This is the first report of the high-throughput genotyp- ing by GBS of Spanish wheat germplasm. 7 Genetic diversity (Hs) distribution across the genome in the reference varieties and landraces. In our study, 50 K SNP and 100 K DArT markers were analyzed in each of the wheat species, from which we were able to select approximately 10 K SNP and 40 K DArT high quality markers.

The complete chloroplast genome of greater duckweed (Spirodela polyrhiza 7498) using PacBio long reads: Insights into the chloroplast evolution and transcription regulation

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The chloroplast genome sequencing has become routine and less expensive with the delivery of high-throughput sequencing technologies, allowing us to deeply investigate genomics and transcriptomics of duckweed organelles.. Results: Here, the complete chloroplast genome of Spirodela polyrhiza 7498 (SpV2) is assembled by PacBio sequencing.

Comparative transcriptome analysis uncovers regulatory roles of long noncoding RNAs involved in resistance to powdery mildew in melon

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In the present study, high-throughput RNA-seq and comparative transcriptome analysis were performed to identify PM- responsive lncRNAs from the leaves of PM-resistant and. In total, 11,612 lncRNAs were finally discovered.

DNAscent v2: Detecting replication forks in nanopore sequencing data with deep learning

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The high-throughput detection of replication fork movement. with single-molecule resolution is critical for understand- ing how a cell replicates its DNA, which is particularly important for diseases like cancer where DNA replication is a therapeutic target [2].

Genome-wide miRNA analysis and integrated network for flavonoid biosynthesis in Osmanthus fragrans

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Based on the advan- tages of high-throughput sequencing technology, the capacity in large-scale miRNAs detection and high sensi- tivity in the measurement of minimally expressed miR- NAs, it has been widely used to powerfully identify conserved miRNAs and species-specific miRNAs during. fragrans, one of the widely cul- tivated perennial, evergreen broad leaved trees in Asia, is not reported yet.

Characterization of a wheat–tetraploid Thinopyrum elongatum 1E(1D) substitution line K17–841-1 by cytological and phenotypic analysis and developed molecular markers

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The markers developed in this study may be useful for the high-throughput and accurate detection of tetraploid Th. breeding population implies that these specific markers are appropriate for tracing the stripe rust resistance gene carried on chromosome 1E of tetraploid Th. After analyzing the hybrids from crosses be- tween tetraploid Th. bessarabicum, Dvořák [44] concluded that tetraploid Th.

Exploring protocol bias in airway microbiome studies: One versus two PCR steps and 16S rRNA gene region V3 V4 versus V4

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Background: Studies on the airway microbiome have been performed using a wide range of laboratory protocols for high-throughput sequencing of the bacterial 16S ribosomal RNA (16S rRNA) gene. We sought to determine the impact of number of polymerase chain reaction (PCR) steps (1- or 2- steps) and choice of target marker gene region (V3 V4 and V4) on the presentation of the upper and lower airway microbiome.

Competitive mapping allows for the identification and exclusion of human DNA contamination in ancient faunal genomic datasets

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Analysis of high-throughput ancient DNA sequencing data.. A draft sequence of the Neandertal genome. Present-day DNA contamination in ancient DNA datasets. Separating endogenous ancient DNA from modern day. From the field to the laboratory: controlling DNA contamination in human ancient DNA research in the high-throughput sequencing era. Population demography and genetic diversity in the Pleistocene cave lion. Genome sequence, comparative analysis and haplotype structure of the domestic dog.

Transcriptome profiling of human thymic CD4+ and CD8+ T cells compared to primary peripheral T cells

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Results: We have performed high-throughput RNA sequencing to characterize the transcriptomes of primary single positive (SP) CD4+ and CD8+ T cells from infant thymic tissue, as well as primary CD4+ and CD8+ T cells from infant and adult peripheral blood, to enable the comparisons across tissues and ages. In addition, we have assessed the expression of candidate genes related to autoimmune diseases in thymic CD4+ and CD8+ T cells.