Analysis

Data analysis outline

We propose solutions for analysis, visualization, management and interpretation of highthroughput genomic data (Next Generation Sequencing, NanoString and microarrays).

Next Gen Sequencing (NGS)

  • Quality control (QC)
  • Mapping to reference genome

TRANSCRIPTOMICS

  • Differentially expressed gene (DEG) analysis
  • Annotations
  • Visualization (PCA, heatmaps, Venn diagrams, ...)
  • KEGG enrichment and pathway analysis

VARIANT CALLING
(DNAseq, exome)

  • List of variants
  • Annotations
  • Prioritization

OTHERS
(CRISPR, ...)

NanoString - Microarrays

  • Differentially expressed gene (DEG) analysis
  • Visualization (PCA, heatmaps, Venn diagrams, ...)

Report

For all types of analysis, a detailed report file is provided with the ouput files.

Additionally
  • Data submission to public data repository (GEO, ArrayExpress, ...)
  • Support for data management plan (DMP)
Minimal information to provide
  • Species - release genome
  • Experimental design:
    • sample ID
    • experimental factor (littermate, treatment, ...)
    • biological conditions (A, B, C, ...)
    • comparisons (A vs. B, C vs. B, ...)

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