Structured Review

Illumina Inc phi29 dna polymerase
Phi29 Dna Polymerase, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 93/100, based on 16 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/phi29 dna polymerase/product/Illumina Inc
Average 93 stars, based on 16 article reviews
Price from $9.99 to $1999.99
phi29 dna polymerase - by Bioz Stars, 2020-09
93/100 stars

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Amplification:

Article Title: Genomic mosaicism in the developing and adult brain
Article Snippet: .. A crucial initial step in these investigations is massive amplification of single‐cell genomic DNA through use of techniques like “multiple displacement amplification” (MDA) that employs phi29 DNA polymerase, followed by high coverage, whole genome sequencing with paired end Illumina reads, which has revealed SNVs in neurons of the brain. .. In addition to enormous levels of amplification, data processing must informatically take into account the error rate of the utilized phi29 polymerase, chimeric artifacts, amplification bias and errors, and the significant failure rates of single genome amplifications that likely exclude neurons with genomic attributes that interfere with amplification (e.g., strand breaks, large structural variations, chromatin states).

Article Title: Large Chromosome Deletions, Duplications, and Gene Conversion Events Accumulate with Age in Normal Human Colon Crypts
Article Snippet: .. The sample DNA was whole genome amplified with phi29 DNA polymerase using the Illumina kit (WG-312-1120 HumanOmniExpress-12 v1.1 DNA Analysis BeadChip Kit), which is one of the routine steps for preparing DNA samples for SNP array hybridization. .. This is a linear amplification method (with a ~7-fold increase in DNA amount) with minimal context bias and no precedent of causing LOH changes.

Article Title: Genome sequencing accuracy by RCA-seq versus long PCR template cloning and sequencing in identification of human papillomavirus type 58
Article Snippet: .. RCA enrichment, RCA chimeras debranching, paired-end library preparation and deep sequencing Rolling circle amplification (RCA) based on phi29 DNA polymerase used to enrich the HPV58 genome and RCA chimeras debranching, paired-end library preparation and deep sequencing with an Illumina HiSeq-2000 platform have described in our other publications [ , ]. .. Long PCR template preparation, cloning, and sequencing RCA products prepared separately from three clinical samples (sample 9, 10 and 13) without S1 digestion and DNA shearing were selectively linearized by AgeI or DraII digestion and then amplified with a primer pair Pr3506 (5′-GACAGTAGACCACGAGGA-3′, forward) and Pr7036 (5′-TACTCAGGATC/CGTCCCAAAGGAAACTGATC-3′, backward) for AgeI-digested RCA products, and with a primer pair Pr6906 (5′-TACATCGAATT/CTCCCAGGCTATTACTTGC-3′, forward) and Pr3694 (5′-CCAATGCCATGTGGATGAC-3′, backward) for DraII-digested RCA products, respectively, using the Expand Long Template PCR System (Roche, Cat No. 11681834001).

Multiple Displacement Amplification:

Article Title: Genomic mosaicism in the developing and adult brain
Article Snippet: .. A crucial initial step in these investigations is massive amplification of single‐cell genomic DNA through use of techniques like “multiple displacement amplification” (MDA) that employs phi29 DNA polymerase, followed by high coverage, whole genome sequencing with paired end Illumina reads, which has revealed SNVs in neurons of the brain. .. In addition to enormous levels of amplification, data processing must informatically take into account the error rate of the utilized phi29 polymerase, chimeric artifacts, amplification bias and errors, and the significant failure rates of single genome amplifications that likely exclude neurons with genomic attributes that interfere with amplification (e.g., strand breaks, large structural variations, chromatin states).

Article Title: Single Virus Genomics: A New Tool for Virus Discovery
Article Snippet: .. A reaction called multiple displacement amplification (MDA) – , which uses the high-fidelity processive capabilities of the phi29 DNA polymerase, can amplify the genome of a bacterial cell more than a billion-fold generating the micrograms of genomic DNA typically required for DNA sequencing either via Sanger sequencing , 454 pyrosequencing , and/or Illumina platforms . .. While some sequence is lost due to non-specific amplification or damage to the single genome copy, as much as > 90% of the genome has been recovered from single cell sequencing , .

Next-Generation Sequencing:

Article Title: Genome sequencing accuracy by RCA-seq versus long PCR template cloning and sequencing in identification of human papillomavirus type 58
Article Snippet: .. Although the viral DNA from each clinical sample was enriched by RCA using phi29 DNA polymerase [ , ] which features only a minimal error rate of 1 in 106 -107 [ ] and the reported sequencing accuracy for a NGS with Illumina HiSeq platform is 98% [ ], we found that RCA-seq in this report displayed a more reliable approach, by calling consensus bases, in decoding the entire HPV58 genome in size of 7824 nts. .. This could be achieved by using a combination of both high fidelity phi29 DNA polymerase at the experimental side and appropriate sequencing data analysis at the computational side.

SYBR Green Assay:

Article Title: Genomic mosaicism with increased amyloid precursor protein (APP) gene copy number in single neurons from sporadic Alzheimer's disease brains
Article Snippet: .. Nuclei were denatured by multiple freeze–thaw cycles and potassium hydroxide, the solution was neutralized, and phi29 DNA polymerase (Illumina, San Diego, CA), dNTPs, SYBR green, and random hexamers (IDT, Coralville, IA) were added ( ). .. Quantitative PCR primers All qPCR was performed according to MIQE guidelines ( ).

Sequencing:

Article Title: Genome sequencing accuracy by RCA-seq versus long PCR template cloning and sequencing in identification of human papillomavirus type 58
Article Snippet: .. Although the viral DNA from each clinical sample was enriched by RCA using phi29 DNA polymerase [ , ] which features only a minimal error rate of 1 in 106 -107 [ ] and the reported sequencing accuracy for a NGS with Illumina HiSeq platform is 98% [ ], we found that RCA-seq in this report displayed a more reliable approach, by calling consensus bases, in decoding the entire HPV58 genome in size of 7824 nts. .. This could be achieved by using a combination of both high fidelity phi29 DNA polymerase at the experimental side and appropriate sequencing data analysis at the computational side.

Article Title: Genomic mosaicism in the developing and adult brain
Article Snippet: .. A crucial initial step in these investigations is massive amplification of single‐cell genomic DNA through use of techniques like “multiple displacement amplification” (MDA) that employs phi29 DNA polymerase, followed by high coverage, whole genome sequencing with paired end Illumina reads, which has revealed SNVs in neurons of the brain. .. In addition to enormous levels of amplification, data processing must informatically take into account the error rate of the utilized phi29 polymerase, chimeric artifacts, amplification bias and errors, and the significant failure rates of single genome amplifications that likely exclude neurons with genomic attributes that interfere with amplification (e.g., strand breaks, large structural variations, chromatin states).

Article Title: Single Virus Genomics: A New Tool for Virus Discovery
Article Snippet: .. A reaction called multiple displacement amplification (MDA) – , which uses the high-fidelity processive capabilities of the phi29 DNA polymerase, can amplify the genome of a bacterial cell more than a billion-fold generating the micrograms of genomic DNA typically required for DNA sequencing either via Sanger sequencing , 454 pyrosequencing , and/or Illumina platforms . .. While some sequence is lost due to non-specific amplification or damage to the single genome copy, as much as > 90% of the genome has been recovered from single cell sequencing , .

Article Title: Genome sequencing accuracy by RCA-seq versus long PCR template cloning and sequencing in identification of human papillomavirus type 58
Article Snippet: .. RCA enrichment, RCA chimeras debranching, paired-end library preparation and deep sequencing Rolling circle amplification (RCA) based on phi29 DNA polymerase used to enrich the HPV58 genome and RCA chimeras debranching, paired-end library preparation and deep sequencing with an Illumina HiSeq-2000 platform have described in our other publications [ , ]. .. Long PCR template preparation, cloning, and sequencing RCA products prepared separately from three clinical samples (sample 9, 10 and 13) without S1 digestion and DNA shearing were selectively linearized by AgeI or DraII digestion and then amplified with a primer pair Pr3506 (5′-GACAGTAGACCACGAGGA-3′, forward) and Pr7036 (5′-TACTCAGGATC/CGTCCCAAAGGAAACTGATC-3′, backward) for AgeI-digested RCA products, and with a primer pair Pr6906 (5′-TACATCGAATT/CTCCCAGGCTATTACTTGC-3′, forward) and Pr3694 (5′-CCAATGCCATGTGGATGAC-3′, backward) for DraII-digested RCA products, respectively, using the Expand Long Template PCR System (Roche, Cat No. 11681834001).

DNA Sequencing:

Article Title: Single Virus Genomics: A New Tool for Virus Discovery
Article Snippet: .. A reaction called multiple displacement amplification (MDA) – , which uses the high-fidelity processive capabilities of the phi29 DNA polymerase, can amplify the genome of a bacterial cell more than a billion-fold generating the micrograms of genomic DNA typically required for DNA sequencing either via Sanger sequencing , 454 pyrosequencing , and/or Illumina platforms . .. While some sequence is lost due to non-specific amplification or damage to the single genome copy, as much as > 90% of the genome has been recovered from single cell sequencing , .

IA:

Article Title: Genomic mosaicism with increased amyloid precursor protein (APP) gene copy number in single neurons from sporadic Alzheimer's disease brains
Article Snippet: .. Nuclei were denatured by multiple freeze–thaw cycles and potassium hydroxide, the solution was neutralized, and phi29 DNA polymerase (Illumina, San Diego, CA), dNTPs, SYBR green, and random hexamers (IDT, Coralville, IA) were added ( ). .. Nuclei were denatured by multiple freeze–thaw cycles and potassium hydroxide, the solution was neutralized, and phi29 DNA polymerase (Illumina, San Diego, CA), dNTPs, SYBR green, and random hexamers (IDT, Coralville, IA) were added ( ).

Hybridization:

Article Title: Large Chromosome Deletions, Duplications, and Gene Conversion Events Accumulate with Age in Normal Human Colon Crypts
Article Snippet: .. The sample DNA was whole genome amplified with phi29 DNA polymerase using the Illumina kit (WG-312-1120 HumanOmniExpress-12 v1.1 DNA Analysis BeadChip Kit), which is one of the routine steps for preparing DNA samples for SNP array hybridization. .. This is a linear amplification method (with a ~7-fold increase in DNA amount) with minimal context bias and no precedent of causing LOH changes.

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    Illumina Inc bacteriophage phi29 dna polymerase
    Bacteriophage Phi29 Dna Polymerase, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/bacteriophage phi29 dna polymerase/product/Illumina Inc
    Average 86 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    bacteriophage phi29 dna polymerase - by Bioz Stars, 2020-09
    86/100 stars
      Buy from Supplier

    93
    Illumina Inc phi29 dna polymerase
    Phi29 Dna Polymerase, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 93/100, based on 16 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/phi29 dna polymerase/product/Illumina Inc
    Average 93 stars, based on 16 article reviews
    Price from $9.99 to $1999.99
    phi29 dna polymerase - by Bioz Stars, 2020-09
    93/100 stars
      Buy from Supplier

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