Structured Review

Illumina Inc bp single end sequencing reads
Bp Single End Sequencing Reads, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/bp single end sequencing reads/product/Illumina Inc
Average 92 stars, based on 1 article reviews
Price from $9.99 to $1999.99
bp single end sequencing reads - by Bioz Stars, 2020-05
92/100 stars

Related Products / Commonly Used Together

hiseq2500 platform

Images

Related Articles

Sequencing:

Article Title: The involvement of serum exosomal miR-500-3p and miR-770-3p in aging: modulation by calorie restriction
Article Snippet: .. The HiSeq2500 platform was utilized to generate 50 bp single-end sequencing reads (Illumina, CA, USA). ..

Similar Products

  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
  • 85
    Illumina Inc single end 36 bp illumina sequencing
    Barcode lentiviral vector, sequencing and analysis workflow. (a) The 20 bp DNA barcode was cloned into the non-coding region of a SIN (self-inactivating) lentiviral vector upstream of a UBC-eGFP cassette. The P5 <t>Illumina</t> sequencing adapter sequence was integrated next to the barcode, and the P7 adapter was added during the PCR amplification step (primer positions shown). (b) This PCR results in a 250 bp fragment that includes a 4 bp indexing tag to allow pooling of multiple samples into a single lane of a flow cell, in addition to the 20 bp random barcode sequence, and flanked on either side by eight 'anchor' bases, which act as markers to identify true barcode sequences within the sequencing data. Finally, the fragments contain a spacer of approximately 90 bp and the second (P7) Illumina adapter for sequencing. Integrating the adapter into the barcode vector allows for single-end 36 bp (short) sequencing reads in which the barcode end is always sequenced. (c) Data analysis workflow.
    Single End 36 Bp Illumina Sequencing, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 85/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/single end 36 bp illumina sequencing/product/Illumina Inc
    Average 85 stars, based on 2 article reviews
    Price from $9.99 to $1999.99
    single end 36 bp illumina sequencing - by Bioz Stars, 2020-05
    85/100 stars
      Buy from Supplier

    86
    Illumina Inc small rna seq protocol
    The genomic context around AT1G68945 in A. thaliana . This figure shows a ∼600 bp region of A. thaliana , chromosome 1, around the existing annotation of the gene AT1G68945. In this case, the DRS data for this region (Track K) reveal that the existing annotation is on the incorrect strand. This kind of situation is difficult for automated re-annotation pipelines to deal with, particularly if they focus on using natively un-stranded data, such as <t>Illumina</t> <t>RNA-Seq,</t> to inform the annotation. This highlights necessity of natively stranded data, such as DRS data, for correctly defining feature annotations. For full details of the individual tracks and layout of this figure, see Figure 1 (caption). See the Materials and Methods section for more details on the A. thaliana RNA-Seq, EST and DRS datasets, and their processing.
    Small Rna Seq Protocol, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 86/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/small rna seq protocol/product/Illumina Inc
    Average 86 stars, based on 4 article reviews
    Price from $9.99 to $1999.99
    small rna seq protocol - by Bioz Stars, 2020-05
    86/100 stars
      Buy from Supplier

    92
    Illumina Inc illumina genome analyzer
    HELP-tagging assay design and library preparation . The genomic DNA is digested by HpaII or MspI, the former only cutting at CCGG sequences where the central CG dinucleotide is unmethylated. The first <t>Illumina</t> adapter (AE) is ligated to the compatible cohesive end created, juxtaposing an EcoP15I site beside the HpaII/MspI digestion site and allowing EcoP15I to digest within the flanking DNA sequence as shown. An A overhang is created, allowing the ligation of the second Illumina adapter (AS, green). This will create not only AE-insert-AS products but also AS-insert-AS molecules. By performing a T7 polymerase-mediated in vitro transcription from a promoter sequence located on the AE adapter, we can selectively enrich for the AE-insert-AS product, following which limited PCR amplification is performed to generate a single sized product for Illumina sequencing. RT, reverse transcription.
    Illumina Genome Analyzer, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 22 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/illumina genome analyzer/product/Illumina Inc
    Average 92 stars, based on 22 article reviews
    Price from $9.99 to $1999.99
    illumina genome analyzer - by Bioz Stars, 2020-05
    92/100 stars
      Buy from Supplier

    99
    Illumina Inc hiseq 4000 system
    Sequencing data collection and analysis workflow. Two weeks prior to mate-pairing with A v y / a males, 8- to 10-wk-old wild-type a / a dams were placed on one of two experimental diet groups: (1) Control (modified, phytoestrogen-free 7% corn oil AIN-93G), or (2) Control + 50 μ g BPA / kg diet. Dietary exposure was continued through gestation and lactation until weaning at postnatal day 21. Genomic DNA was isolated from matched wild-type a / a offspring blood samples at 2, 4, and 10 months of age. DNA was isolated from a subset of Control ( n = 6 per age group) and BPA-exposed ( n = 6 per age group) mice, then processed in preparation for HsMeDIP-seq. All processed samples were amplified and sequenced on an Illumina <t>HiSeq</t> 4000 sequencer using single-end, 50 nt reads. BPA-related differentially hydroxymethylated regions (DHMRs) were identified and annotated using a bioinformatics pipeline. Annotated DHMRs were then visualized in the genome browser. The target gene region—Gnas—was then validated using RT-qPCR on available RNA from the blood samples.
    Hiseq 4000 System, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 99/100, based on 167 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/hiseq 4000 system/product/Illumina Inc
    Average 99 stars, based on 167 article reviews
    Price from $9.99 to $1999.99
    hiseq 4000 system - by Bioz Stars, 2020-05
    99/100 stars
      Buy from Supplier

    Image Search Results


    Barcode lentiviral vector, sequencing and analysis workflow. (a) The 20 bp DNA barcode was cloned into the non-coding region of a SIN (self-inactivating) lentiviral vector upstream of a UBC-eGFP cassette. The P5 Illumina sequencing adapter sequence was integrated next to the barcode, and the P7 adapter was added during the PCR amplification step (primer positions shown). (b) This PCR results in a 250 bp fragment that includes a 4 bp indexing tag to allow pooling of multiple samples into a single lane of a flow cell, in addition to the 20 bp random barcode sequence, and flanked on either side by eight 'anchor' bases, which act as markers to identify true barcode sequences within the sequencing data. Finally, the fragments contain a spacer of approximately 90 bp and the second (P7) Illumina adapter for sequencing. Integrating the adapter into the barcode vector allows for single-end 36 bp (short) sequencing reads in which the barcode end is always sequenced. (c) Data analysis workflow.

    Journal: Genome Biology

    Article Title: Lentiviral and targeted cellular barcoding reveals ongoing clonal dynamics of cell lines in vitro and in vivo

    doi: 10.1186/gb-2014-15-5-r75

    Figure Lengend Snippet: Barcode lentiviral vector, sequencing and analysis workflow. (a) The 20 bp DNA barcode was cloned into the non-coding region of a SIN (self-inactivating) lentiviral vector upstream of a UBC-eGFP cassette. The P5 Illumina sequencing adapter sequence was integrated next to the barcode, and the P7 adapter was added during the PCR amplification step (primer positions shown). (b) This PCR results in a 250 bp fragment that includes a 4 bp indexing tag to allow pooling of multiple samples into a single lane of a flow cell, in addition to the 20 bp random barcode sequence, and flanked on either side by eight 'anchor' bases, which act as markers to identify true barcode sequences within the sequencing data. Finally, the fragments contain a spacer of approximately 90 bp and the second (P7) Illumina adapter for sequencing. Integrating the adapter into the barcode vector allows for single-end 36 bp (short) sequencing reads in which the barcode end is always sequenced. (c) Data analysis workflow.

    Article Snippet: The lentiviral vector was designed to include the Illumina P5 adapter sequence 8 bp upstream of the barcode sequence, facilitating amplification and sample preparation of the barcode sequences in a single PCR step, while positioning the barcode, allowing for the use of single-end 36 bp Illumina sequencing reads, and thus maximizing the barcode-to-cost ratio (Figure a).

    Techniques: Plasmid Preparation, Sequencing, Clone Assay, Polymerase Chain Reaction, Amplification, Flow Cytometry, Activated Clotting Time Assay

    The genomic context around AT1G68945 in A. thaliana . This figure shows a ∼600 bp region of A. thaliana , chromosome 1, around the existing annotation of the gene AT1G68945. In this case, the DRS data for this region (Track K) reveal that the existing annotation is on the incorrect strand. This kind of situation is difficult for automated re-annotation pipelines to deal with, particularly if they focus on using natively un-stranded data, such as Illumina RNA-Seq, to inform the annotation. This highlights necessity of natively stranded data, such as DRS data, for correctly defining feature annotations. For full details of the individual tracks and layout of this figure, see Figure 1 (caption). See the Materials and Methods section for more details on the A. thaliana RNA-Seq, EST and DRS datasets, and their processing.

    Journal: PLoS ONE

    Article Title: Improved Annotation of 3? Untranslated Regions and Complex Loci by Combination of Strand-Specific Direct RNA Sequencing, RNA-Seq and ESTs

    doi: 10.1371/journal.pone.0094270

    Figure Lengend Snippet: The genomic context around AT1G68945 in A. thaliana . This figure shows a ∼600 bp region of A. thaliana , chromosome 1, around the existing annotation of the gene AT1G68945. In this case, the DRS data for this region (Track K) reveal that the existing annotation is on the incorrect strand. This kind of situation is difficult for automated re-annotation pipelines to deal with, particularly if they focus on using natively un-stranded data, such as Illumina RNA-Seq, to inform the annotation. This highlights necessity of natively stranded data, such as DRS data, for correctly defining feature annotations. For full details of the individual tracks and layout of this figure, see Figure 1 (caption). See the Materials and Methods section for more details on the A. thaliana RNA-Seq, EST and DRS datasets, and their processing.

    Article Snippet: The accession contains one sample (SRR) of ∼21 M 36 bp single-end reads prepared via the Illumina small RNA-seq protocol.

    Techniques: RNA Sequencing Assay

    HELP-tagging assay design and library preparation . The genomic DNA is digested by HpaII or MspI, the former only cutting at CCGG sequences where the central CG dinucleotide is unmethylated. The first Illumina adapter (AE) is ligated to the compatible cohesive end created, juxtaposing an EcoP15I site beside the HpaII/MspI digestion site and allowing EcoP15I to digest within the flanking DNA sequence as shown. An A overhang is created, allowing the ligation of the second Illumina adapter (AS, green). This will create not only AE-insert-AS products but also AS-insert-AS molecules. By performing a T7 polymerase-mediated in vitro transcription from a promoter sequence located on the AE adapter, we can selectively enrich for the AE-insert-AS product, following which limited PCR amplification is performed to generate a single sized product for Illumina sequencing. RT, reverse transcription.

    Journal: Genome Biology

    Article Title: Optimized design and data analysis of tag-based cytosine methylation assays

    doi: 10.1186/gb-2010-11-4-r36

    Figure Lengend Snippet: HELP-tagging assay design and library preparation . The genomic DNA is digested by HpaII or MspI, the former only cutting at CCGG sequences where the central CG dinucleotide is unmethylated. The first Illumina adapter (AE) is ligated to the compatible cohesive end created, juxtaposing an EcoP15I site beside the HpaII/MspI digestion site and allowing EcoP15I to digest within the flanking DNA sequence as shown. An A overhang is created, allowing the ligation of the second Illumina adapter (AS, green). This will create not only AE-insert-AS products but also AS-insert-AS molecules. By performing a T7 polymerase-mediated in vitro transcription from a promoter sequence located on the AE adapter, we can selectively enrich for the AE-insert-AS product, following which limited PCR amplification is performed to generate a single sized product for Illumina sequencing. RT, reverse transcription.

    Article Snippet: Libraries were sequenced using an Illumina Genome Analyzer (36 bp single end reads) and the sequences were analyzed and aligned using Illumina pipeline software version 1.3 or 1.4.

    Techniques: Sequencing, Ligation, In Vitro, Polymerase Chain Reaction, Amplification

    Sequencing data collection and analysis workflow. Two weeks prior to mate-pairing with A v y / a males, 8- to 10-wk-old wild-type a / a dams were placed on one of two experimental diet groups: (1) Control (modified, phytoestrogen-free 7% corn oil AIN-93G), or (2) Control + 50 μ g BPA / kg diet. Dietary exposure was continued through gestation and lactation until weaning at postnatal day 21. Genomic DNA was isolated from matched wild-type a / a offspring blood samples at 2, 4, and 10 months of age. DNA was isolated from a subset of Control ( n = 6 per age group) and BPA-exposed ( n = 6 per age group) mice, then processed in preparation for HsMeDIP-seq. All processed samples were amplified and sequenced on an Illumina HiSeq 4000 sequencer using single-end, 50 nt reads. BPA-related differentially hydroxymethylated regions (DHMRs) were identified and annotated using a bioinformatics pipeline. Annotated DHMRs were then visualized in the genome browser. The target gene region—Gnas—was then validated using RT-qPCR on available RNA from the blood samples.

    Journal: Environmental Health Perspectives

    Article Title: Longitudinal Effects of Developmental Bisphenol A Exposure on Epigenome-Wide DNA Hydroxymethylation at Imprinted Loci in Mouse Blood

    doi: 10.1289/EHP3441

    Figure Lengend Snippet: Sequencing data collection and analysis workflow. Two weeks prior to mate-pairing with A v y / a males, 8- to 10-wk-old wild-type a / a dams were placed on one of two experimental diet groups: (1) Control (modified, phytoestrogen-free 7% corn oil AIN-93G), or (2) Control + 50 μ g BPA / kg diet. Dietary exposure was continued through gestation and lactation until weaning at postnatal day 21. Genomic DNA was isolated from matched wild-type a / a offspring blood samples at 2, 4, and 10 months of age. DNA was isolated from a subset of Control ( n = 6 per age group) and BPA-exposed ( n = 6 per age group) mice, then processed in preparation for HsMeDIP-seq. All processed samples were amplified and sequenced on an Illumina HiSeq 4000 sequencer using single-end, 50 nt reads. BPA-related differentially hydroxymethylated regions (DHMRs) were identified and annotated using a bioinformatics pipeline. Annotated DHMRs were then visualized in the genome browser. The target gene region—Gnas—was then validated using RT-qPCR on available RNA from the blood samples.

    Article Snippet: Single-end, 50 -bp reads were obtained for each library by sequencing on the HiSeq 4000 system (Illumina).

    Techniques: Sequencing, Modification, Isolation, Mouse Assay, Amplification, Quantitative RT-PCR