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sequence analysis software resequencing workflow 6.19.1.403+nsv6  (Illumina Inc)


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    Structured Review

    Illumina Inc sequence analysis software resequencing workflow 6.19.1.403+nsv6
    Sequence Analysis Software Resequencing Workflow 6.19.1.403+Nsv6, 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/analysis+workflow+software/sequence+analysis+software+resequencing+workflow/pm38141912-67-2-1
    Average 90 stars, based on 1 article reviews
    sequence analysis software resequencing workflow 6.19.1.403+nsv6 - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Sequencing:

    Article Title: Uncommon protein-coding variants associated with suicide attempt in a diverse sample of US Army soldiers.
    Article Snippet: .. Using Illumina sequence analysis software resequencing workflow (6.19.1.403+NSv6), sequenced reads were aligned to human genome HG38 by ISAAC (version Isaac-0.4.17.06.15) [26]. ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways
    Article Snippet: .. All WGS samples were initially processed through the Illumina Sequence Analysis Software Resequencing Workflow (version 6.19.1.403 + NSv6). ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways.
    Article Snippet: .. Germline and somatic variant calling and sample concordance All WGS samples were initially processed through the Illumina Sequence Analysis Software Resequencing Workflow (version 6.19.1.403 + NSv6). ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways
    Article Snippet: .. We then called somatic variants from matched tumor and normal specimens using the Illumina Sequence Analysis Software Tumor Normal Workflow (version 6.9.1.177 + NSv6), which called somatic SNVs and indels with Strelka2, somatic structural variants with Manta, and somatic copy number alterations with Canvas. ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways.
    Article Snippet: .. We then called somatic variants frommatched tumor and normal specimens using the Illumina Sequence Analysis Software Tumor Normal Workflow (version 6.9.1.177 + NSv6), which called somatic SNVs and indels with Strelka2, somatic structural variants with Manta, and somatic copy number alterations with Canvas. ..

    Software:

    Article Title: Uncommon protein-coding variants associated with suicide attempt in a diverse sample of US Army soldiers.
    Article Snippet: .. Using Illumina sequence analysis software resequencing workflow (6.19.1.403+NSv6), sequenced reads were aligned to human genome HG38 by ISAAC (version Isaac-0.4.17.06.15) [26]. ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways
    Article Snippet: .. All WGS samples were initially processed through the Illumina Sequence Analysis Software Resequencing Workflow (version 6.19.1.403 + NSv6). ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways.
    Article Snippet: .. Germline and somatic variant calling and sample concordance All WGS samples were initially processed through the Illumina Sequence Analysis Software Resequencing Workflow (version 6.19.1.403 + NSv6). ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways
    Article Snippet: .. We then called somatic variants from matched tumor and normal specimens using the Illumina Sequence Analysis Software Tumor Normal Workflow (version 6.9.1.177 + NSv6), which called somatic SNVs and indels with Strelka2, somatic structural variants with Manta, and somatic copy number alterations with Canvas. ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways.
    Article Snippet: .. We then called somatic variants frommatched tumor and normal specimens using the Illumina Sequence Analysis Software Tumor Normal Workflow (version 6.9.1.177 + NSv6), which called somatic SNVs and indels with Strelka2, somatic structural variants with Manta, and somatic copy number alterations with Canvas. ..

    Whole Complete genome sequencing:

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways
    Article Snippet: .. All WGS samples were initially processed through the Illumina Sequence Analysis Software Resequencing Workflow (version 6.19.1.403 + NSv6). ..

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways.
    Article Snippet: .. Germline and somatic variant calling and sample concordance All WGS samples were initially processed through the Illumina Sequence Analysis Software Resequencing Workflow (version 6.19.1.403 + NSv6). ..

    other:

    Article Title: Germline mutation landscape of DNA damage repair genes in African Americans with prostate cancer highlights potentially targetable RAD genes
    Article Snippet: Software and code Policy information about availability of computer code Data collection Clinical data were collected using Oracle and MS Access databases Data analysis Illumina HiSeq Analysis Software (Isas, 6.19.1.403+NSv6): sequence processing and QC bcl2fastq2.v2.20: Conversion of bcl files to fastq Isaac Aligner (Isaac-04.17.06.15): Genome Alignment Strelka2 Version 2.8.0: Germline Variant Calling Illumina HiSeq Analysis Software 2.2: sequence processing and QC Broad Picard 2.18: sequencing QC ContEst (GATK3.6): Estimate cross-sample contamination Peddy(v0.4.3): Ancestry detection and relatedness estimation InterVar (v2.0.1): Variant interpretation using ACMG-AMP guideline AnnoVar (2019): Variant annotation R 3.5.0: Statistical analysis bcftools (v1.9): VCF file manipulation Integrated Variant Viewer (IGV v2.4): variant visualization gvcfgenotyper (v2018.10.15): merge genome VCFs into cohort VCF R 4.0.3: Statistical analysis, eVai (version 2.2): functional scoring of the variants QuantaSoft (v1.7.4.0917) For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.

    Article Title: Germline mutation landscape of DNA damage repair genes in African Americans with prostate cancer highlights potentially targetable RAD genes
    Article Snippet: Data analysis Illumina HiSeq Analysis Software (Isas, 6.19.1.403+NSv6): sequence processing and QC bcl2fastq2.v2.20: Conversion of bcl files to fastq Isaac Aligner (Isaac-04.17.06.15): Genome Alignment Strelka2 Version 2.8.0: Germline Variant Calling Illumina HiSeq Analysis Software 2.2: sequence processing and QC Broad Picard 2.18: sequencing QC ContEst (GATK3.6): Estimate cross-sample contamination Peddy(v0.4.3): Ancestry detection and relatedness estimation InterVar (v2.0.1): Variant interpretation using ACMG-AMP guideline AnnoVar (2019): Variant annotation R 3.5.0: Statistical analysis bcftools (v1.9): VCF file manipulation Integrated Variant Viewer (IGV v2.4): variant visualization gvcfgenotyper (v2018.10.15): merge genome VCFs into cohort VCF R 4.0.3: Statistical analysis, eVai (version 2.2): functional scoring of the variants QuantaSoft (v1.7.4.0917)

    Variant Assay:

    Article Title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways.
    Article Snippet: .. Germline and somatic variant calling and sample concordance All WGS samples were initially processed through the Illumina Sequence Analysis Software Resequencing Workflow (version 6.19.1.403 + NSv6). ..



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