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phix sequencing control library  (Illumina Inc)


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    Structured Review

    Illumina Inc phix sequencing control library
    Phix Sequencing Control Library, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 99/100, based on 3835 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/phix+sequencing+control+library/PhiX+Control+v3/us12497601-1626-7-6
    Average 99 stars, based on 3835 article reviews
    phix sequencing control library - by Bioz Stars, 2026-10
    99/100 stars

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    Related Articles

    Sequencing:

    Article Title: Single-nuclei transcriptomics of mammalian prion diseases identifies dynamic gene signatures shared between species
    Article Snippet: .. Each pool was sequenced on the Illumina NextSeq 500 after the addition of 5% PhiX sequencing control library (FC-110-3002; Illumina) using the following settings: paired-end, read 1: 75 nt, read 2: 75 nt. ..

    Article Title: Transition Mutations in the hTERT Promoter Are Unrelated to Potential i-motif Formation in the C-Rich Strand.
    Article Snippet: This was further diluted to 4 pM using chilled HT1 hybridization buffer (20015892, Illumina, San Diego, CA, USA). .. To increase nucleotide diversity in each sequencing cycle, a PhiX sequencing control library (cat# FC-110-3001, Illumina, San Diego, CA, USA) was denatured and diluted to 4 pM in the same way as the pooled library, and the PhiX control was combined with the sequencing library at 20% volume. ..

    Article Title: RNA-guided endonuclease fusion polypeptides and methods of use thereof
    Article Snippet: Quality control consisted of fragment analysis (Advanced Analytical) and concentration measurement of the sequenceable fraction by quantitative PCR (Kapa Biosystems). .. The pooled sample was mixed with Illumina PhiX sequencing control library at 10% molarity, diluted to 14 pM, denatured, and run on an Illumina MiSeq using a 150 bp paired-end read MiSeq Reagent Kit v2. .. Resulting basecall files where converted into demultiplexed fastq format using Illumina's version 2.17 bcl2fastq.

    Article Title: Obesity increases genomic instability at DNA repeat-mediated endogenous mutation hotspots
    Article Snippet: For MiSeq sequencing, 5 μL of the control and test libraries were denatured with 0.2 N NaOH for 5 min at room temperature and diluted to 10 pM before loading them onto a MiSeq V3 600 cycle cartridge for cluster generation and sequencing using a paired-end 300 bp run. .. A 15% PhiX sequencing control library (Illumina, San Diego, CA) was included as a control. .. After demultiplexing the samples, the millions of overlapping reads obtained from the 300 bp paired-end Illumina sequencing were aligned and merged using the Pandaseq program with the ea_util merging algorithm.

    Article Title: RNA-guided endonuclease fusion polypeptides and methods of use thereof
    Article Snippet: Quality control consisted of fragment analysis (Advanced Analytical) and concentration measurement of the sequenceable fraction by quantitative PCR (Kapa Biosystems). .. The pooled sample was mixed with Illumina PhiX sequencing control library at 10% molarity, diluted to 14 pM, denatured, and run on an Illumina MiSeq using a 150 bp paired-end read MiSeq Reagent Kit v2. .. Resulting basecall files where converted into demultiplexed fastq format using Illumina's version 2.17 bcl2fastq.

    Article Title: Transition Mutations in the hTERT Promoter Are Unrelated to Potential i-motif Formation in the C-Rich Strand
    Article Snippet: This was further diluted to 4 pM using chilled HT1 hybridization buffer (20015892, Illumina, San Diego, CA, USA). .. To increase nucleotide diversity in each sequencing cycle, a PhiX sequencing control library (cat# FC-110-3001, Illumina, San Diego, CA, USA) was denatured and diluted to 4 pM in the same way as the pooled library, and the PhiX control was combined with the sequencing library at 20% volume. ..

    Article Title: Obesity increases genomic instability at DNA repeat-mediated endogenous mutation hotspots.
    Article Snippet: For MiSeq sequencing, 5μL of the control and test libraries were denaturedwith 0.2 NNaOH for 5min at room temperature and diluted to 10 pM before loading them onto aMiSeq V3 600 cycle cartridge for cluster generation and sequencing using a paired-end 300bp run. .. A 15% PhiX sequencing control library (Illumina, San Diego, CA) was included as a control. .. After demultiplexing the samples, themillions of overlapping reads obtained from the 300 bp paired-end Illumina sequencing were aligned and merged using the Pandaseq program94 with the ea_util merging algorithm.

    Article Title: RNA-guided endonuclease fusion polypeptides and methods of use thereof
    Article Snippet: Quality control consisted of fragment analysis (Advanced Analytical) and concentration measurement of the sequenceable fraction by quantitative PCR (Kapa Biosystems). .. The pooled sample was mixed with Illumina PhiX sequencing control library at 10% molarity, diluted to 14 pM, denatured, and run on an Illumina MiSeq using a 150 bp paired-end read MiSeq Reagent Kit v2. .. Resulting basecall files where converted into demultiplexed fastq format using Illumina's version 2.17 bcl2fastq.

    Control:

    Article Title: Single-nuclei transcriptomics of mammalian prion diseases identifies dynamic gene signatures shared between species
    Article Snippet: .. Each pool was sequenced on the Illumina NextSeq 500 after the addition of 5% PhiX sequencing control library (FC-110-3002; Illumina) using the following settings: paired-end, read 1: 75 nt, read 2: 75 nt. ..

    Article Title: Transition Mutations in the hTERT Promoter Are Unrelated to Potential i-motif Formation in the C-Rich Strand.
    Article Snippet: This was further diluted to 4 pM using chilled HT1 hybridization buffer (20015892, Illumina, San Diego, CA, USA). .. To increase nucleotide diversity in each sequencing cycle, a PhiX sequencing control library (cat# FC-110-3001, Illumina, San Diego, CA, USA) was denatured and diluted to 4 pM in the same way as the pooled library, and the PhiX control was combined with the sequencing library at 20% volume. ..

    Article Title: RNA-guided endonuclease fusion polypeptides and methods of use thereof
    Article Snippet: Quality control consisted of fragment analysis (Advanced Analytical) and concentration measurement of the sequenceable fraction by quantitative PCR (Kapa Biosystems). .. The pooled sample was mixed with Illumina PhiX sequencing control library at 10% molarity, diluted to 14 pM, denatured, and run on an Illumina MiSeq using a 150 bp paired-end read MiSeq Reagent Kit v2. .. Resulting basecall files where converted into demultiplexed fastq format using Illumina's version 2.17 bcl2fastq.

    Article Title: Obesity increases genomic instability at DNA repeat-mediated endogenous mutation hotspots
    Article Snippet: For MiSeq sequencing, 5 μL of the control and test libraries were denatured with 0.2 N NaOH for 5 min at room temperature and diluted to 10 pM before loading them onto a MiSeq V3 600 cycle cartridge for cluster generation and sequencing using a paired-end 300 bp run. .. A 15% PhiX sequencing control library (Illumina, San Diego, CA) was included as a control. .. After demultiplexing the samples, the millions of overlapping reads obtained from the 300 bp paired-end Illumina sequencing were aligned and merged using the Pandaseq program with the ea_util merging algorithm.

    Article Title: RNA-guided endonuclease fusion polypeptides and methods of use thereof
    Article Snippet: Quality control consisted of fragment analysis (Advanced Analytical) and concentration measurement of the sequenceable fraction by quantitative PCR (Kapa Biosystems). .. The pooled sample was mixed with Illumina PhiX sequencing control library at 10% molarity, diluted to 14 pM, denatured, and run on an Illumina MiSeq using a 150 bp paired-end read MiSeq Reagent Kit v2. .. Resulting basecall files where converted into demultiplexed fastq format using Illumina's version 2.17 bcl2fastq.

    Article Title: Transition Mutations in the hTERT Promoter Are Unrelated to Potential i-motif Formation in the C-Rich Strand
    Article Snippet: This was further diluted to 4 pM using chilled HT1 hybridization buffer (20015892, Illumina, San Diego, CA, USA). .. To increase nucleotide diversity in each sequencing cycle, a PhiX sequencing control library (cat# FC-110-3001, Illumina, San Diego, CA, USA) was denatured and diluted to 4 pM in the same way as the pooled library, and the PhiX control was combined with the sequencing library at 20% volume. ..

    Article Title: Obesity increases genomic instability at DNA repeat-mediated endogenous mutation hotspots.
    Article Snippet: For MiSeq sequencing, 5μL of the control and test libraries were denaturedwith 0.2 NNaOH for 5min at room temperature and diluted to 10 pM before loading them onto aMiSeq V3 600 cycle cartridge for cluster generation and sequencing using a paired-end 300bp run. .. A 15% PhiX sequencing control library (Illumina, San Diego, CA) was included as a control. .. After demultiplexing the samples, themillions of overlapping reads obtained from the 300 bp paired-end Illumina sequencing were aligned and merged using the Pandaseq program94 with the ea_util merging algorithm.

    Article Title: RNA-guided endonuclease fusion polypeptides and methods of use thereof
    Article Snippet: Quality control consisted of fragment analysis (Advanced Analytical) and concentration measurement of the sequenceable fraction by quantitative PCR (Kapa Biosystems). .. The pooled sample was mixed with Illumina PhiX sequencing control library at 10% molarity, diluted to 14 pM, denatured, and run on an Illumina MiSeq using a 150 bp paired-end read MiSeq Reagent Kit v2. .. Resulting basecall files where converted into demultiplexed fastq format using Illumina's version 2.17 bcl2fastq.



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    Fig. 2 | Isolation of a target barcoded cell from a complex population. a, Nucleotide compositions of barcodes prepared for Mammalian CloneSelect Pool-100. Five barcodes with unexpected lengths were excluded from this visualization. The full barcode <t>sequence</t> list can be found in Supplementary Table 1. b, Barcode abundance distribution in the Pool-100 cell population. The pie chart represents the success rate of enriching target barcodes to more than 25% in each sorted cell population. The horizontal blue line shows the least abundant barcode successfully enriched after sorting. c, gRNA-dependent labeling of target barcoded cells in Pool-100 (n = 1). Scale bar, 40 µm. d, Conceptual diagram of the benchmarking experiment using Pool-100. e, Barcode enrichment analysis after the cell sorting of EGFP+ cells. Each row shows the barcode abundance profile for the predetermined barcodes in the pool corresponding to each target isolation assay. f, Conceptual diagram of the benchmarking experiment using
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    Fig. 2 | Isolation of a target barcoded cell from a complex population. a, Nucleotide compositions of barcodes prepared for Mammalian CloneSelect Pool-100. Five barcodes with unexpected lengths were excluded from this visualization. The full barcode <t>sequence</t> list can be found in Supplementary Table 1. b, Barcode abundance distribution in the Pool-100 cell population. The pie chart represents the success rate of enriching target barcodes to more than 25% in each sorted cell population. The horizontal blue line shows the least abundant barcode successfully enriched after sorting. c, gRNA-dependent labeling of target barcoded cells in Pool-100 (n = 1). Scale bar, 40 µm. d, Conceptual diagram of the benchmarking experiment using Pool-100. e, Barcode enrichment analysis after the cell sorting of EGFP+ cells. Each row shows the barcode abundance profile for the predetermined barcodes in the pool corresponding to each target isolation assay. f, Conceptual diagram of the benchmarking experiment using
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    Fig. 2 | Isolation of a target barcoded cell from a complex population. a, Nucleotide compositions of barcodes prepared for Mammalian CloneSelect Pool-100. Five barcodes with unexpected lengths were excluded from this visualization. The full barcode <t>sequence</t> list can be found in Supplementary Table 1. b, Barcode abundance distribution in the Pool-100 cell population. The pie chart represents the success rate of enriching target barcodes to more than 25% in each sorted cell population. The horizontal blue line shows the least abundant barcode successfully enriched after sorting. c, gRNA-dependent labeling of target barcoded cells in Pool-100 (n = 1). Scale bar, 40 µm. d, Conceptual diagram of the benchmarking experiment using Pool-100. e, Barcode enrichment analysis after the cell sorting of EGFP+ cells. Each row shows the barcode abundance profile for the predetermined barcodes in the pool corresponding to each target isolation assay. f, Conceptual diagram of the benchmarking experiment using
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    Image Search Results


    An illustration of our proposed workflow for analyzing the human seminal bacteriome (created with bioRender.com). (1) Collection of ejaculate following the guidelines outlined in the WHO Laboratory Manual for the Examination and Processing of Human Semen . (2) Assessment of ejaculate quality in adherence to the WHO Laboratory Manual . (3) Extraction of bacterial DNA using the QIAamp DNA Mini Kit (Qiagen). (4) Amplification of the gene for 16S rRNA, focusing on the V3-V4 variable region ( , , , , , , ). (5) Sequencing of the amplified products on the MiSeq platform (Illumina, USA). (6) Bioinformatic and statistical analysis and interpretation of the raw data obtained.

    Journal: Frontiers in Reproductive Health

    Article Title: State-of-the-art approaches in the investigation of human seminal bacteriome using metagenomic methods

    doi: 10.3389/frph.2025.1557912

    Figure Lengend Snippet: An illustration of our proposed workflow for analyzing the human seminal bacteriome (created with bioRender.com). (1) Collection of ejaculate following the guidelines outlined in the WHO Laboratory Manual for the Examination and Processing of Human Semen . (2) Assessment of ejaculate quality in adherence to the WHO Laboratory Manual . (3) Extraction of bacterial DNA using the QIAamp DNA Mini Kit (Qiagen). (4) Amplification of the gene for 16S rRNA, focusing on the V3-V4 variable region ( , , , , , , ). (5) Sequencing of the amplified products on the MiSeq platform (Illumina, USA). (6) Bioinformatic and statistical analysis and interpretation of the raw data obtained.

    Article Snippet: Five studies used, in addition to the above, a control sequencing library, specifically PhiX (Illumina) ( , , , , ).

    Techniques: Extraction, Amplification, Sequencing

    Fig. 2 | Isolation of a target barcoded cell from a complex population. a, Nucleotide compositions of barcodes prepared for Mammalian CloneSelect Pool-100. Five barcodes with unexpected lengths were excluded from this visualization. The full barcode sequence list can be found in Supplementary Table 1. b, Barcode abundance distribution in the Pool-100 cell population. The pie chart represents the success rate of enriching target barcodes to more than 25% in each sorted cell population. The horizontal blue line shows the least abundant barcode successfully enriched after sorting. c, gRNA-dependent labeling of target barcoded cells in Pool-100 (n = 1). Scale bar, 40 µm. d, Conceptual diagram of the benchmarking experiment using Pool-100. e, Barcode enrichment analysis after the cell sorting of EGFP+ cells. Each row shows the barcode abundance profile for the predetermined barcodes in the pool corresponding to each target isolation assay. f, Conceptual diagram of the benchmarking experiment using

    Journal: Nature biotechnology

    Article Title: A multi-kingdom genetic barcoding system for precise clone isolation.

    doi: 10.1038/s41587-025-02649-1

    Figure Lengend Snippet: Fig. 2 | Isolation of a target barcoded cell from a complex population. a, Nucleotide compositions of barcodes prepared for Mammalian CloneSelect Pool-100. Five barcodes with unexpected lengths were excluded from this visualization. The full barcode sequence list can be found in Supplementary Table 1. b, Barcode abundance distribution in the Pool-100 cell population. The pie chart represents the success rate of enriching target barcodes to more than 25% in each sorted cell population. The horizontal blue line shows the least abundant barcode successfully enriched after sorting. c, gRNA-dependent labeling of target barcoded cells in Pool-100 (n = 1). Scale bar, 40 µm. d, Conceptual diagram of the benchmarking experiment using Pool-100. e, Barcode enrichment analysis after the cell sorting of EGFP+ cells. Each row shows the barcode abundance profile for the predetermined barcodes in the pool corresponding to each target isolation assay. f, Conceptual diagram of the benchmarking experiment using

    Article Snippet: Sequencing libraries were pooled with PhiX Control (v.3) (Illumina, no. FC-110-3001) and sequenced using Illumina NovaSeq 6000 with paired-end sequencing.

    Techniques: Isolation, Sequencing, Labeling, FACS

    Fig. 5 | Yeast and Bacterial CloneSelect. a, Yeast CloneSelect. b,c, Micrographs (b) and reporter mCherry intensities (c) for barcode-specific gRNA-dependent mCherry activation. Scale bar, 25 µm. mCherry intensities measured by a plate reader were normalized by OD595 (n = 3). d, GTG→ATG editing frequencies observed by high-throughput sequencing. Two-tailed Welch’s t-test was used for the statistical test. e, Yeast colonies formed on a 10-cm agar plate after introducing a trigger plasmid encoding a target gRNA to the Pool-100 yeast population. f,g, Barcode abundance distributions in Pool-100 (f) and Pool-1580 (g). The pie charts represent the success rates of isolating target barcoded cells whose abundances were above the minimal abundance that was successfully isolated. The horizontal blue lines show the least abundant barcode successfully isolated. h,i, Colonies of barcoded

    Journal: Nature biotechnology

    Article Title: A multi-kingdom genetic barcoding system for precise clone isolation.

    doi: 10.1038/s41587-025-02649-1

    Figure Lengend Snippet: Fig. 5 | Yeast and Bacterial CloneSelect. a, Yeast CloneSelect. b,c, Micrographs (b) and reporter mCherry intensities (c) for barcode-specific gRNA-dependent mCherry activation. Scale bar, 25 µm. mCherry intensities measured by a plate reader were normalized by OD595 (n = 3). d, GTG→ATG editing frequencies observed by high-throughput sequencing. Two-tailed Welch’s t-test was used for the statistical test. e, Yeast colonies formed on a 10-cm agar plate after introducing a trigger plasmid encoding a target gRNA to the Pool-100 yeast population. f,g, Barcode abundance distributions in Pool-100 (f) and Pool-1580 (g). The pie charts represent the success rates of isolating target barcoded cells whose abundances were above the minimal abundance that was successfully isolated. The horizontal blue lines show the least abundant barcode successfully isolated. h,i, Colonies of barcoded

    Article Snippet: Sequencing libraries were pooled with PhiX Control (v.3) (Illumina, no. FC-110-3001) and sequenced using Illumina NovaSeq 6000 with paired-end sequencing.

    Techniques: Activation Assay, Next-Generation Sequencing, Two Tailed Test, Plasmid Preparation, Isolation