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cap analysis gene expression sequencing (cage-seq)  (Illumina Inc)


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    Illumina Inc cap analysis gene expression sequencing (cage-seq)
    Cap Analysis Gene Expression Sequencing (Cage Seq), 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/cap+analysis+gene+expression+sequencing+(cage-seq)/next+generation+sequencing/ppr0886728-7-2-9
    Average 90 stars, based on 1 article reviews
    cap analysis gene expression sequencing (cage-seq) - by Bioz Stars, 2026-09
    90/100 stars

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    Related Articles

    Gene Expression:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Sequencing:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    RNA Sequencing:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    In Silico:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Expressing:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Derivative Assay:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Infection:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Isolation:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    RNA Sequencing Assay:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Software:

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside longread direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Article Title: Decoding the Architecture of the Varicella-Zoster Virus Transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) (31) to map TSS by an orthologous approach (Fig. 1A).

    Article Title: Defining the Temporal Transcriptomic Landscape of a Viral Pathogen through Nanopore and CAGE sequencing
    Article Snippet: We employed cap analysis gene expression sequencing (CAGE-Seq) on Illumina platform to determine the transcript start sites alongside long-read direct cDNA sequencing (dcDNA-Seq) on Oxford Nanopore Technology platform to detect full-length viral transcripts.

    Article Title: Comprehensive evaluation of deconvolution methods for human brain gene expression
    Article Snippet: These factors had stronger effects on the deconvolution outcome than the sequencing platform (Illumina RNA-seq vs. Cap Analysis of Gene Expression (CAGE)).

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome
    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).



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    (A) Experimental strategy: ARPE-19 cells and hESC-derived neurons were infected with VZV EMC-1 (Clade 1) or -pOka (Clade 2) for 96 hrs. Total RNA was extracted and poly(A) fraction isolated for sequencing <t>by</t> <t>Illumina</t> <t>CAGE-Seq,</t> Illumina RNA-Seq and/or Nanopore dRNA-Seq. Sequence data were aligned against the VZV strain Dumas reference genome (Genbank Accession: NC_001348.1 ) and visualized using the Integrative Genomics Viewer (IGV) and GVIZ . (B) Transcription start sites (TSS) as well as cleavage and polyadenylation sites (CPAS) were identified in nanopore and Illumina datasets. Histograms show the distances observed between nanopore and Illumina predictions, while inset Venn diagrams indicate the numbers of sites identified and their conservation between datasets. (C) Integration of Illumina RNA-Seq, Illumina CAGE-Seq and Nanopore dRNA-Seq datasets. Coverage plots for Illumina RNA-Seq (light-blue), CAGE-Seq (red) and Nanopore dRNA-Seq (teal) are integrated with pileup data that maps TSS (red) and CPAS (black). Rows denoted by TSS and CPAS indicate positions of TSS and CPAS identified using HOMER software for nanopore dRNA-Seq and Illumina CAGE-Seq data and ContextMap2 software for Illumina RNA-Seq data. Conserved TSS and CPAS are indicated with blue asterisks. RNA structures (grey) are inferred from these conserved sites. Wide and thin boxes indicate canonical coding sequence (CDS) domains and untranslated regions (UTRs), respectively. Novel identified RNAs (orange) are shown without predicted CDS domains.
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    Image Search Results


    (A) Experimental strategy: ARPE-19 cells and hESC-derived neurons were infected with VZV EMC-1 (Clade 1) or -pOka (Clade 2) for 96 hrs. Total RNA was extracted and poly(A) fraction isolated for sequencing by Illumina CAGE-Seq, Illumina RNA-Seq and/or Nanopore dRNA-Seq. Sequence data were aligned against the VZV strain Dumas reference genome (Genbank Accession: NC_001348.1 ) and visualized using the Integrative Genomics Viewer (IGV) and GVIZ . (B) Transcription start sites (TSS) as well as cleavage and polyadenylation sites (CPAS) were identified in nanopore and Illumina datasets. Histograms show the distances observed between nanopore and Illumina predictions, while inset Venn diagrams indicate the numbers of sites identified and their conservation between datasets. (C) Integration of Illumina RNA-Seq, Illumina CAGE-Seq and Nanopore dRNA-Seq datasets. Coverage plots for Illumina RNA-Seq (light-blue), CAGE-Seq (red) and Nanopore dRNA-Seq (teal) are integrated with pileup data that maps TSS (red) and CPAS (black). Rows denoted by TSS and CPAS indicate positions of TSS and CPAS identified using HOMER software for nanopore dRNA-Seq and Illumina CAGE-Seq data and ContextMap2 software for Illumina RNA-Seq data. Conserved TSS and CPAS are indicated with blue asterisks. RNA structures (grey) are inferred from these conserved sites. Wide and thin boxes indicate canonical coding sequence (CDS) domains and untranslated regions (UTRs), respectively. Novel identified RNAs (orange) are shown without predicted CDS domains.

    Journal: bioRxiv

    Article Title: Decoding the architecture of the varicella-zoster virus transcriptome

    doi: 10.1101/2020.05.25.110965

    Figure Lengend Snippet: (A) Experimental strategy: ARPE-19 cells and hESC-derived neurons were infected with VZV EMC-1 (Clade 1) or -pOka (Clade 2) for 96 hrs. Total RNA was extracted and poly(A) fraction isolated for sequencing by Illumina CAGE-Seq, Illumina RNA-Seq and/or Nanopore dRNA-Seq. Sequence data were aligned against the VZV strain Dumas reference genome (Genbank Accession: NC_001348.1 ) and visualized using the Integrative Genomics Viewer (IGV) and GVIZ . (B) Transcription start sites (TSS) as well as cleavage and polyadenylation sites (CPAS) were identified in nanopore and Illumina datasets. Histograms show the distances observed between nanopore and Illumina predictions, while inset Venn diagrams indicate the numbers of sites identified and their conservation between datasets. (C) Integration of Illumina RNA-Seq, Illumina CAGE-Seq and Nanopore dRNA-Seq datasets. Coverage plots for Illumina RNA-Seq (light-blue), CAGE-Seq (red) and Nanopore dRNA-Seq (teal) are integrated with pileup data that maps TSS (red) and CPAS (black). Rows denoted by TSS and CPAS indicate positions of TSS and CPAS identified using HOMER software for nanopore dRNA-Seq and Illumina CAGE-Seq data and ContextMap2 software for Illumina RNA-Seq data. Conserved TSS and CPAS are indicated with blue asterisks. RNA structures (grey) are inferred from these conserved sites. Wide and thin boxes indicate canonical coding sequence (CDS) domains and untranslated regions (UTRs), respectively. Novel identified RNAs (orange) are shown without predicted CDS domains.

    Article Snippet: Finally, we performed Illumina Cap Analysis Gene Expression Sequencing (CAGE-Seq) ( ) to map TSS by an orthologous approach ( ).

    Techniques: Derivative Assay, Infection, Isolation, Sequencing, RNA Sequencing Assay, Software