Structured Review

Roche amplicon pipeline analysis
Amplicon Pipeline Analysis, supplied by Roche, used in various techniques. Bioz Stars score: 89/100, based on 11 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/amplicon pipeline analysis/product/Roche
Average 89 stars, based on 11 article reviews
Price from $9.99 to $1999.99
amplicon pipeline analysis - by Bioz Stars, 2020-07
89/100 stars

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Related Articles

Generated:

Article Title: ALK Kinase Domain Mutations in Primary Anaplastic Large Cell Lymphoma: Consequences on NPM-ALK Activity and Sensitivity to Tyrosine Kinase Inhibitors
Article Snippet: .. Data analysis and detection of variants All data were generated using the GS Sequencer software version 2.5.3 (Roche Applied Science), and amplicon pipeline analysis was performed using default settings of the GS RunBrowser software version 2.5.3 (Roche Applied Science). .. Sequence alignments and variant detection was performed using GS Amplicon Variant Analyzer (AVA) 2.7 (Roche Applied Science), in combination with a blast-based pipeline for low frequent large INDELs detection (CRIBI Genomics, University of Padova, Padova, Italy).

Amplification:

Article Title: Epigenetic Silencing of TFPI-2 in Canine Diffuse Large B-Cell Lymphoma
Article Snippet: .. Image processing and amplicon pipeline analysis was performed using default settings of the GS RunBrowser software version 2.7 (Roche Applied Science). .. Gene Expression Analysis of TFPI-2 TFPI-2 expression levels were tested on 25 samples (7 healthy controls and 18 DLBCLs) by means of real-time RT-PCR.

Article Title: ALK Kinase Domain Mutations in Primary Anaplastic Large Cell Lymphoma: Consequences on NPM-ALK Activity and Sensitivity to Tyrosine Kinase Inhibitors
Article Snippet: .. Data analysis and detection of variants All data were generated using the GS Sequencer software version 2.5.3 (Roche Applied Science), and amplicon pipeline analysis was performed using default settings of the GS RunBrowser software version 2.5.3 (Roche Applied Science). .. Sequence alignments and variant detection was performed using GS Amplicon Variant Analyzer (AVA) 2.7 (Roche Applied Science), in combination with a blast-based pipeline for low frequent large INDELs detection (CRIBI Genomics, University of Padova, Padova, Italy).

Software:

Article Title: Epigenetic Silencing of TFPI-2 in Canine Diffuse Large B-Cell Lymphoma
Article Snippet: .. Image processing and amplicon pipeline analysis was performed using default settings of the GS RunBrowser software version 2.7 (Roche Applied Science). .. Gene Expression Analysis of TFPI-2 TFPI-2 expression levels were tested on 25 samples (7 healthy controls and 18 DLBCLs) by means of real-time RT-PCR.

Article Title: ALK Kinase Domain Mutations in Primary Anaplastic Large Cell Lymphoma: Consequences on NPM-ALK Activity and Sensitivity to Tyrosine Kinase Inhibitors
Article Snippet: .. Data analysis and detection of variants All data were generated using the GS Sequencer software version 2.5.3 (Roche Applied Science), and amplicon pipeline analysis was performed using default settings of the GS RunBrowser software version 2.5.3 (Roche Applied Science). .. Sequence alignments and variant detection was performed using GS Amplicon Variant Analyzer (AVA) 2.7 (Roche Applied Science), in combination with a blast-based pipeline for low frequent large INDELs detection (CRIBI Genomics, University of Padova, Padova, Italy).

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  • 89
    Roche automatic amplicon pipeline
    Phylogenetic affiliation of major OTUs (A : Proteobacteria) as well as the OTUs and isolates of Chryseobacterium ( B : Sphingobacterium and Chryseobacterium ) found in the 16S rRNA <t>amplicon</t> libraries. The phylogenetic trees were calculated with the neighbor joining method ( Saitou and Nei, 1987 ). All sequences from valid described bacterial species are derived from type strains. Bootstrap values were inferred from 1000 replicates and are indicated at tree branches when ≥50%. The trees are drawn to scale, with branch lengths in the same units. The bars represent 10 estimated substitution per 1000 nucleotide positions. Blue (dark and light) and brown (dark and light) bars indicate the percentage of the OTU occurrence from cowpea genotype and soil, respectively. Number of reads for each OTU is given in parentheses. All isolates are identified as ESA and the genotypes they were detected (Acauã and Pujante).
    Automatic Amplicon Pipeline, supplied by Roche, used in various techniques. Bioz Stars score: 89/100, based on 17 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/automatic amplicon pipeline/product/Roche
    Average 89 stars, based on 17 article reviews
    Price from $9.99 to $1999.99
    automatic amplicon pipeline - by Bioz Stars, 2020-07
    89/100 stars
      Buy from Supplier

    91
    Roche amplicon filter pipeline
    Phylogenetic affiliation of major OTUs (A : Proteobacteria) as well as the OTUs and isolates of Chryseobacterium ( B : Sphingobacterium and Chryseobacterium ) found in the 16S rRNA <t>amplicon</t> libraries. The phylogenetic trees were calculated with the neighbor joining method ( Saitou and Nei, 1987 ). All sequences from valid described bacterial species are derived from type strains. Bootstrap values were inferred from 1000 replicates and are indicated at tree branches when ≥50%. The trees are drawn to scale, with branch lengths in the same units. The bars represent 10 estimated substitution per 1000 nucleotide positions. Blue (dark and light) and brown (dark and light) bars indicate the percentage of the OTU occurrence from cowpea genotype and soil, respectively. Number of reads for each OTU is given in parentheses. All isolates are identified as ESA and the genotypes they were detected (Acauã and Pujante).
    Amplicon Filter Pipeline, supplied by Roche, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/amplicon filter pipeline/product/Roche
    Average 91 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    amplicon filter pipeline - by Bioz Stars, 2020-07
    91/100 stars
      Buy from Supplier

    85
    Roche gs flx amplicon resequencing
    Phylogenetic affiliation of major OTUs (A : Proteobacteria) as well as the OTUs and isolates of Chryseobacterium ( B : Sphingobacterium and Chryseobacterium ) found in the 16S rRNA <t>amplicon</t> libraries. The phylogenetic trees were calculated with the neighbor joining method ( Saitou and Nei, 1987 ). All sequences from valid described bacterial species are derived from type strains. Bootstrap values were inferred from 1000 replicates and are indicated at tree branches when ≥50%. The trees are drawn to scale, with branch lengths in the same units. The bars represent 10 estimated substitution per 1000 nucleotide positions. Blue (dark and light) and brown (dark and light) bars indicate the percentage of the OTU occurrence from cowpea genotype and soil, respectively. Number of reads for each OTU is given in parentheses. All isolates are identified as ESA and the genotypes they were detected (Acauã and Pujante).
    Gs Flx Amplicon Resequencing, supplied by Roche, used in various techniques. Bioz Stars score: 85/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/gs flx amplicon resequencing/product/Roche
    Average 85 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    gs flx amplicon resequencing - by Bioz Stars, 2020-07
    85/100 stars
      Buy from Supplier

    89
    Roche amplicon pipeline analysis
    Phylogenetic affiliation of major OTUs (A : Proteobacteria) as well as the OTUs and isolates of Chryseobacterium ( B : Sphingobacterium and Chryseobacterium ) found in the 16S rRNA <t>amplicon</t> libraries. The phylogenetic trees were calculated with the neighbor joining method ( Saitou and Nei, 1987 ). All sequences from valid described bacterial species are derived from type strains. Bootstrap values were inferred from 1000 replicates and are indicated at tree branches when ≥50%. The trees are drawn to scale, with branch lengths in the same units. The bars represent 10 estimated substitution per 1000 nucleotide positions. Blue (dark and light) and brown (dark and light) bars indicate the percentage of the OTU occurrence from cowpea genotype and soil, respectively. Number of reads for each OTU is given in parentheses. All isolates are identified as ESA and the genotypes they were detected (Acauã and Pujante).
    Amplicon Pipeline Analysis, supplied by Roche, used in various techniques. Bioz Stars score: 89/100, based on 11 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/amplicon pipeline analysis/product/Roche
    Average 89 stars, based on 11 article reviews
    Price from $9.99 to $1999.99
    amplicon pipeline analysis - by Bioz Stars, 2020-07
    89/100 stars
      Buy from Supplier

    Image Search Results


    Phylogenetic affiliation of major OTUs (A : Proteobacteria) as well as the OTUs and isolates of Chryseobacterium ( B : Sphingobacterium and Chryseobacterium ) found in the 16S rRNA amplicon libraries. The phylogenetic trees were calculated with the neighbor joining method ( Saitou and Nei, 1987 ). All sequences from valid described bacterial species are derived from type strains. Bootstrap values were inferred from 1000 replicates and are indicated at tree branches when ≥50%. The trees are drawn to scale, with branch lengths in the same units. The bars represent 10 estimated substitution per 1000 nucleotide positions. Blue (dark and light) and brown (dark and light) bars indicate the percentage of the OTU occurrence from cowpea genotype and soil, respectively. Number of reads for each OTU is given in parentheses. All isolates are identified as ESA and the genotypes they were detected (Acauã and Pujante).

    Journal: Frontiers in Plant Science

    Article Title: Cowpea Nodules Harbor Non-rhizobial Bacterial Communities that Are Shaped by Soil Type Rather than Plant Genotype

    doi: 10.3389/fpls.2016.02064

    Figure Lengend Snippet: Phylogenetic affiliation of major OTUs (A : Proteobacteria) as well as the OTUs and isolates of Chryseobacterium ( B : Sphingobacterium and Chryseobacterium ) found in the 16S rRNA amplicon libraries. The phylogenetic trees were calculated with the neighbor joining method ( Saitou and Nei, 1987 ). All sequences from valid described bacterial species are derived from type strains. Bootstrap values were inferred from 1000 replicates and are indicated at tree branches when ≥50%. The trees are drawn to scale, with branch lengths in the same units. The bars represent 10 estimated substitution per 1000 nucleotide positions. Blue (dark and light) and brown (dark and light) bars indicate the percentage of the OTU occurrence from cowpea genotype and soil, respectively. Number of reads for each OTU is given in parentheses. All isolates are identified as ESA and the genotypes they were detected (Acauã and Pujante).

    Article Snippet: Data Analysis The automatic amplicon pipeline of the GS Run Processor (Roche, Germany) was used to perform an initial quality filtering of the pyrosequencing raw reads to remove failed reads, low quality reads and adaptor sequences.

    Techniques: Amplification, Derivative Assay