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sequencing data quality control results  (Illumina Inc)


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    Structured Review

    Illumina Inc sequencing data quality control results
    Sequencing Data Quality Control Results, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/sequencing+data+quality+control/sequencing+data+quality+control+results/pm38509284-121-1-0
    Average 90 stars, based on 1 article reviews
    sequencing data quality control results - by Bioz Stars, 2026-09
    90/100 stars

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    Related Articles

    Control:

    Article Title: Effect of Chloroplast ATP Synthase on Reactive Oxygen Species Metabolism in Cotton
    Article Snippet: Bridge PCR was performed on a cBot solid phase vector to generate clusters, and an Illumina NovaSeq sequencing platform (Illumina, San Diego, CA, USA) was used for 2 × 150 bp sequencing. .. For quality control and statistics of the NGS data, Illumina NovaSeq 6000 sequencing technology was used for paired-end sequencing of the DNA samples. ..

    Article Title: Using transcriptome sequencing (RNA-Seq) to screen genes involved in β-glucan biosynthesis and accumulation during oat seed development.
    Article Snippet: .. Transcriptome sequencing and data quality control Illumina sequencing data quality analysis is shown in Table 1. ..

    Article Title: New Insights into the Mediation of Biofilm Formation by Three Core Extracellular Polysaccharide Biosynthesis Pathways in Pseudomonas aeruginosa .
    Article Snippet: .. Sequencing Data Quality Control The Illumina HiSeq X Ten converts sequencing image signals into text signals through CASAVA base calling and stores them in the fastq format as raw data. ..

    Article Title: The pharmacogenomic landscape in the Chinese: An analytics of pharmacogenetic variants in 206,640 individuals
    Article Snippet: .. Single-nucleotide variant frequency information for African, African American, Admixed American, Ashkenazi Jewish, East Asian, Finnish, and Non-Finnish European races was obtained from the Genome Aggregation Database (GnomAD) (version 2.1.1) (http://gnomAD.broadinstitute.org/).6 Star-marked variant information was acquired from the Pharmacogene Variation (PharmVar) database, and the functional annotations of the variants were collected from the CPIC clinical function (https://www.pharmvar.org/).7 NIPT sequencing and data quality control NIPT sequencing data were generated on an Ion Torrent sequencing platform or an Illumina sequencing platform using standard protocols. ..

    Article Title: Experimental reporting of fish transcriptomic responses in environmental toxicology and ecotoxicology.
    Article Snippet: Due to its increasing affordability and efforts to understand transcriptional responses of organisms to biotic and abiotic stimuli, transcriptomics has become an important tool with significant impact on toxicological investigations and hazard and risk assessments, especially during development and application of new approach methodologies (NAMs).. Data generated using transcriptomic methodologies have directly informed adverse outcome pathway frameworks, chemical and biological read across, and aided in the identification of points of departure.. Using data reporting frameworks for transcriptomics data offers improved transparency and reproducibility of research and an opportunity to identify barriers to adoption of these NAMs, especially in environmental toxicology and ecotoxicology with aquatic models.

    Next-Generation Sequencing:

    Article Title: Effect of Chloroplast ATP Synthase on Reactive Oxygen Species Metabolism in Cotton
    Article Snippet: Bridge PCR was performed on a cBot solid phase vector to generate clusters, and an Illumina NovaSeq sequencing platform (Illumina, San Diego, CA, USA) was used for 2 × 150 bp sequencing. .. For quality control and statistics of the NGS data, Illumina NovaSeq 6000 sequencing technology was used for paired-end sequencing of the DNA samples. ..

    Sequencing:

    Article Title: Effect of Chloroplast ATP Synthase on Reactive Oxygen Species Metabolism in Cotton
    Article Snippet: Bridge PCR was performed on a cBot solid phase vector to generate clusters, and an Illumina NovaSeq sequencing platform (Illumina, San Diego, CA, USA) was used for 2 × 150 bp sequencing. .. For quality control and statistics of the NGS data, Illumina NovaSeq 6000 sequencing technology was used for paired-end sequencing of the DNA samples. ..

    Article Title: Using transcriptome sequencing (RNA-Seq) to screen genes involved in β-glucan biosynthesis and accumulation during oat seed development.
    Article Snippet: .. Transcriptome sequencing and data quality control Illumina sequencing data quality analysis is shown in Table 1. ..

    Article Title: New Insights into the Mediation of Biofilm Formation by Three Core Extracellular Polysaccharide Biosynthesis Pathways in Pseudomonas aeruginosa .
    Article Snippet: .. Sequencing Data Quality Control The Illumina HiSeq X Ten converts sequencing image signals into text signals through CASAVA base calling and stores them in the fastq format as raw data. ..

    Article Title: The pharmacogenomic landscape in the Chinese: An analytics of pharmacogenetic variants in 206,640 individuals
    Article Snippet: .. Single-nucleotide variant frequency information for African, African American, Admixed American, Ashkenazi Jewish, East Asian, Finnish, and Non-Finnish European races was obtained from the Genome Aggregation Database (GnomAD) (version 2.1.1) (http://gnomAD.broadinstitute.org/).6 Star-marked variant information was acquired from the Pharmacogene Variation (PharmVar) database, and the functional annotations of the variants were collected from the CPIC clinical function (https://www.pharmvar.org/).7 NIPT sequencing and data quality control NIPT sequencing data were generated on an Ion Torrent sequencing platform or an Illumina sequencing platform using standard protocols. ..

    other:

    Article Title: The DHCR7 is the key target of lipotoxic liver injury caused by matrine through abnormal activation of the cholesterol synthesis pathway.
    Article Snippet: Statistical and quality control were performed on the raw data obtained from Illumina sequencing before it was compared with the genome.

    Article Title: Impact of Comprehensive Genome Profiling on the Management of Advanced Non–Small Cell Lung Cancer: Preliminary Results From the Lung Cancer Cohort of the FPG500 Program
    Article Snippet: Antonio Vitale, MD ; Luca Mastrantoni, MD ; Jacopo Russo, MD; Flavia Giacomini, MSc, PhD; Diana Giannarelli, PhD; Simona Duranti, MD, PhD ; Emanuele Vita, MD, PhD ; Camilla Nero, MD, PhD ; Ettore D’Argento, MD, PhD; Tina Pasciuto, PhD; Luciano Giacò, PhD ; Mariantonietta Di Salvatore, MD, PhD; Arianna Panfili, MD; Alessio Stefani, MD, PhD ; Alessandra Cancellieri, MD, PhD; Filippo Lococo, MD, PhD ; Elisa De Paolis, MSc ; Vanina Livi, MD ; Gennaro Daniele, MD, PhD ; Rocco Trisolini, MD; Angelo Minucci, PhD ; Stefano Margaritora, MD; Domenica Lorusso, MD, PhD ; Nicola Normanno, MD, PhD ; Giovanni Scambia, MD, PhD ; Giampaolo Tortora, MD, PhD ; and Emilio Bria, MD, PhD

    Article Title: Identification of pain-related long non-coding RNAs for pulpitis prediction.
    Article Snippet: Extended author information available on the last page of the article Abstract Objectives We investigated the recently generated RNA-sequencing dataset of pulpitis to identify the potential pain-related lncRNAs for pulpitis prediction.. Materials and methods Differential analysis was performed on the gene expression profile between normal and pulpitis samples to obtain pulpitis-related genes.. The co-expressed gene modules were identified by weighted gene coexpression network analysis (WGCNA).

    Variant Assay:

    Article Title: The pharmacogenomic landscape in the Chinese: An analytics of pharmacogenetic variants in 206,640 individuals
    Article Snippet: .. Single-nucleotide variant frequency information for African, African American, Admixed American, Ashkenazi Jewish, East Asian, Finnish, and Non-Finnish European races was obtained from the Genome Aggregation Database (GnomAD) (version 2.1.1) (http://gnomAD.broadinstitute.org/).6 Star-marked variant information was acquired from the Pharmacogene Variation (PharmVar) database, and the functional annotations of the variants were collected from the CPIC clinical function (https://www.pharmvar.org/).7 NIPT sequencing and data quality control NIPT sequencing data were generated on an Ion Torrent sequencing platform or an Illumina sequencing platform using standard protocols. ..

    Functional Assay:

    Article Title: The pharmacogenomic landscape in the Chinese: An analytics of pharmacogenetic variants in 206,640 individuals
    Article Snippet: .. Single-nucleotide variant frequency information for African, African American, Admixed American, Ashkenazi Jewish, East Asian, Finnish, and Non-Finnish European races was obtained from the Genome Aggregation Database (GnomAD) (version 2.1.1) (http://gnomAD.broadinstitute.org/).6 Star-marked variant information was acquired from the Pharmacogene Variation (PharmVar) database, and the functional annotations of the variants were collected from the CPIC clinical function (https://www.pharmvar.org/).7 NIPT sequencing and data quality control NIPT sequencing data were generated on an Ion Torrent sequencing platform or an Illumina sequencing platform using standard protocols. ..

    Generated:

    Article Title: The pharmacogenomic landscape in the Chinese: An analytics of pharmacogenetic variants in 206,640 individuals
    Article Snippet: .. Single-nucleotide variant frequency information for African, African American, Admixed American, Ashkenazi Jewish, East Asian, Finnish, and Non-Finnish European races was obtained from the Genome Aggregation Database (GnomAD) (version 2.1.1) (http://gnomAD.broadinstitute.org/).6 Star-marked variant information was acquired from the Pharmacogene Variation (PharmVar) database, and the functional annotations of the variants were collected from the CPIC clinical function (https://www.pharmvar.org/).7 NIPT sequencing and data quality control NIPT sequencing data were generated on an Ion Torrent sequencing platform or an Illumina sequencing platform using standard protocols. ..

    RNA Sequencing:

    Article Title: Experimental reporting of fish transcriptomic responses in environmental toxicology and ecotoxicology.
    Article Snippet: Due to its increasing affordability and efforts to understand transcriptional responses of organisms to biotic and abiotic stimuli, transcriptomics has become an important tool with significant impact on toxicological investigations and hazard and risk assessments, especially during development and application of new approach methodologies (NAMs).. Data generated using transcriptomic methodologies have directly informed adverse outcome pathway frameworks, chemical and biological read across, and aided in the identification of points of departure.. Using data reporting frameworks for transcriptomics data offers improved transparency and reproducibility of research and an opportunity to identify barriers to adoption of these NAMs, especially in environmental toxicology and ecotoxicology with aquatic models.



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    General analysis in Trichoderma atroviride T11-treated (T11) Solanum lycopersicum or untreated (C) plants libraries. ( A ) Length distribution and abundance of the miRNAs that showed at least 10 read counts against their miRNA* sequence in S. lycopersicum plants treated (T11) or not (C). The percentage is calculated over the total number of reads that aligned to the miRNA candidates identified in plants from both conditions (including those with less than 10 read counts against their miRNA* sequence and/or those that were solely transcribed in one sample per condition). The length of the miRNAs identified ranged from 20–24 nt; ( B ) Venn diagram showing the number of miRNAs (that displayed at least 10 read counts against their miRNA* sequence) identified in both conditions, solely in T11 (green) or in untreated control plants (blue).

    Journal: International Journal of Molecular Sciences

    Article Title: Identification of Tomato microRNAs in Late Response to Trichoderma atroviride

    doi: 10.3390/ijms25031617

    Figure Lengend Snippet: General analysis in Trichoderma atroviride T11-treated (T11) Solanum lycopersicum or untreated (C) plants libraries. ( A ) Length distribution and abundance of the miRNAs that showed at least 10 read counts against their miRNA* sequence in S. lycopersicum plants treated (T11) or not (C). The percentage is calculated over the total number of reads that aligned to the miRNA candidates identified in plants from both conditions (including those with less than 10 read counts against their miRNA* sequence and/or those that were solely transcribed in one sample per condition). The length of the miRNAs identified ranged from 20–24 nt; ( B ) Venn diagram showing the number of miRNAs (that displayed at least 10 read counts against their miRNA* sequence) identified in both conditions, solely in T11 (green) or in untreated control plants (blue).

    Article Snippet: Quality control of the sequencing data and the identification of known and novel miRNA candidates were performed by Sequentia Biotech S.L. (Barcelona, Spain) as follows.

    Techniques: Sequencing, Control