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Illumina Inc 36 bp single end sequencing
36 Bp Single End Sequencing, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 88/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/36 bp single end sequencing/product/Illumina Inc
Average 88 stars, based on 8 article reviews
Price from $9.99 to $1999.99
36 bp single end sequencing - by Bioz Stars, 2020-05
88/100 stars

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Related Articles

Flow Cytometry:

Article Title: A DEK Domain-Containing Protein Modulates Chromatin Structure and Function in Arabidopsis [W] [W] [OPEN]
Article Snippet: .. Library DNA was captured on an Illumina flow cell for cluster generation, and 36-bp single-end sequencing was achieved on a Genome Analyzer IIx (Illumina) following Illumina’s protocol. ..

Sample Prep:

Article Title: Transcriptome and Histopathological Changes in Mouse Brain Infected with Neospora caninum
Article Snippet: .. Sequencing libraries were constructed with the RNA Sample Prep Kit (Illumina, San Diego, CA, USA); 36-bp single-end sequencing was performed using the Illumina Genome Analyzer IIx (Illumina) with the TruSeq SBS Kit v5-GA (36 cycle) (Illumina), according to the manufacturer's instructions. .. All treatment and following analyses associated with transcriptome sequencing were done individually.

Article Title: Transcriptome analysis of the effect of C-C chemokine receptor 5 deficiency on cell response to Toxoplasma gondii in brain cells
Article Snippet: .. Sequencing libraries were constructed using the TruSeq RNA Sample Prep Kit (Illumina, San Diego, CA, USA), while 36-bp single-end sequencing was performed using the Illumina Genome Analyzer IIx and TruSeq SBS Kit v5-GA (36-cycle) (Illumina), according to the manufacturer’s instructions. ..

Article Title: Transcriptional profiling of Toll-like receptor 2-deficient primary murine brain cells during Toxoplasma gondii infection
Article Snippet: .. Sequencing libraries were constructed with a TruSeq RNA Sample Prep Kit (Illumina, CA, USA), while 36-bp single-end sequencing was performed with the Illumina Genome Analyzer IIx and TruSeq SBS Kit v5-GA (36-cycle) (Illumina) according to the manufacturer’s instructions. .. Sequence tags were aligned using TopHat (version 1.3.3 doi:10.1093/bioinformatics/btp120) and general transfer format (gtf) data (Mus_musculus.GRCm38.69), as previously described [ ].

Construct:

Article Title: Transcriptome and Histopathological Changes in Mouse Brain Infected with Neospora caninum
Article Snippet: .. Sequencing libraries were constructed with the RNA Sample Prep Kit (Illumina, San Diego, CA, USA); 36-bp single-end sequencing was performed using the Illumina Genome Analyzer IIx (Illumina) with the TruSeq SBS Kit v5-GA (36 cycle) (Illumina), according to the manufacturer's instructions. .. All treatment and following analyses associated with transcriptome sequencing were done individually.

Article Title: Transcriptome analysis of the effect of C-C chemokine receptor 5 deficiency on cell response to Toxoplasma gondii in brain cells
Article Snippet: .. Sequencing libraries were constructed using the TruSeq RNA Sample Prep Kit (Illumina, San Diego, CA, USA), while 36-bp single-end sequencing was performed using the Illumina Genome Analyzer IIx and TruSeq SBS Kit v5-GA (36-cycle) (Illumina), according to the manufacturer’s instructions. ..

Article Title: Transcriptional profiling of Toll-like receptor 2-deficient primary murine brain cells during Toxoplasma gondii infection
Article Snippet: .. Sequencing libraries were constructed with a TruSeq RNA Sample Prep Kit (Illumina, CA, USA), while 36-bp single-end sequencing was performed with the Illumina Genome Analyzer IIx and TruSeq SBS Kit v5-GA (36-cycle) (Illumina) according to the manufacturer’s instructions. .. Sequence tags were aligned using TopHat (version 1.3.3 doi:10.1093/bioinformatics/btp120) and general transfer format (gtf) data (Mus_musculus.GRCm38.69), as previously described [ ].

Generated:

Article Title: Population and single-cell genomics reveal the Aire dependency, relief from Polycomb silencing, and distribution of self-antigen expression in thymic epithelia
Article Snippet: .. Biologically replicate ( n = 2) poly(A)+ selected RNA-seq libraries were generated from 1 µg of total RNA (see Supplemental Methods), and 36-bp single-end sequencing was performed using an Illumina GAII Analyzer. .. Chromatin immunoprecipitation (ChIP) was performed as previously described ( ) with minor modifications and antibodies as detailed in the Supplemental Methods.

Sequencing:

Article Title: Transcriptome and Histopathological Changes in Mouse Brain Infected with Neospora caninum
Article Snippet: .. Sequencing libraries were constructed with the RNA Sample Prep Kit (Illumina, San Diego, CA, USA); 36-bp single-end sequencing was performed using the Illumina Genome Analyzer IIx (Illumina) with the TruSeq SBS Kit v5-GA (36 cycle) (Illumina), according to the manufacturer's instructions. .. All treatment and following analyses associated with transcriptome sequencing were done individually.

Article Title: Population and single-cell genomics reveal the Aire dependency, relief from Polycomb silencing, and distribution of self-antigen expression in thymic epithelia
Article Snippet: .. Biologically replicate ( n = 2) poly(A)+ selected RNA-seq libraries were generated from 1 µg of total RNA (see Supplemental Methods), and 36-bp single-end sequencing was performed using an Illumina GAII Analyzer. .. Chromatin immunoprecipitation (ChIP) was performed as previously described ( ) with minor modifications and antibodies as detailed in the Supplemental Methods.

Article Title: Transcriptome analysis of the effect of C-C chemokine receptor 5 deficiency on cell response to Toxoplasma gondii in brain cells
Article Snippet: .. Sequencing libraries were constructed using the TruSeq RNA Sample Prep Kit (Illumina, San Diego, CA, USA), while 36-bp single-end sequencing was performed using the Illumina Genome Analyzer IIx and TruSeq SBS Kit v5-GA (36-cycle) (Illumina), according to the manufacturer’s instructions. ..

Article Title: Candidate gene identification of ovulation-inducing genes by RNA sequencing with an in vivo assay in zebrafish
Article Snippet: .. Using the Illumina GAIIx, all libraries were sequenced on a single lane of 36-bp single-end sequencing according to the manufacturer’s protocol (Illumina, Inc., Tokyo, Japan). .. To count the number of transcripts, RNA-seq reads were aligned to the zebrafish genome sequence (danRer7) using Illumina ELAND v2 mapping software [ ] ( ).

Article Title: Digital gene expression for non-model organisms
Article Snippet: .. Cluster generation and 36-bp single-end sequencing were performed on an Illumina Genome Analyzer IIx at the HudsonAlpha Institute for Biotechnology (Huntsville, AL). .. For each EDGE library, EDGE tags were obtained by selecting sequence reads that passed the quality filter defined by the default Illumina pipeline and trimming off the adaptor sequence at the end of each read.

Article Title: Transcriptional profiling of Toll-like receptor 2-deficient primary murine brain cells during Toxoplasma gondii infection
Article Snippet: .. Sequencing libraries were constructed with a TruSeq RNA Sample Prep Kit (Illumina, CA, USA), while 36-bp single-end sequencing was performed with the Illumina Genome Analyzer IIx and TruSeq SBS Kit v5-GA (36-cycle) (Illumina) according to the manufacturer’s instructions. .. Sequence tags were aligned using TopHat (version 1.3.3 doi:10.1093/bioinformatics/btp120) and general transfer format (gtf) data (Mus_musculus.GRCm38.69), as previously described [ ].

Article Title: A DEK Domain-Containing Protein Modulates Chromatin Structure and Function in Arabidopsis [W] [W] [OPEN]
Article Snippet: .. Library DNA was captured on an Illumina flow cell for cluster generation, and 36-bp single-end sequencing was achieved on a Genome Analyzer IIx (Illumina) following Illumina’s protocol. ..

RNA Sequencing Assay:

Article Title: Population and single-cell genomics reveal the Aire dependency, relief from Polycomb silencing, and distribution of self-antigen expression in thymic epithelia
Article Snippet: .. Biologically replicate ( n = 2) poly(A)+ selected RNA-seq libraries were generated from 1 µg of total RNA (see Supplemental Methods), and 36-bp single-end sequencing was performed using an Illumina GAII Analyzer. .. Chromatin immunoprecipitation (ChIP) was performed as previously described ( ) with minor modifications and antibodies as detailed in the Supplemental Methods.

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  • 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

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    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