NGS Services

Whole Transcriptome Sequencing

Next generation sequencing enables gene expression analysis from normal and disease tissues with high-sensitivity. Profiling of coding and non-coding RNAs is important in revealing molecular mechanisms of development and disease. With the several options that exist for gene expression profiling, it is also possible to perform whole transcriptome profiling ranging from a single-cell to thousands of cells in a sample. In addition, current methodologies allow for profiling of transcriptomes from intact RNA and RNA degraded due to the storage and isolation conditions (such as FFPE processed tissue blocks, cell-free nucleic acids etc). At MedGenome we offer solutions, for performing gene expression analysis from a wide-range of sample types. Shown in table 1 is a range of sample types that we process for whole transcriptome profiling.

Highlights of our services are:

  • Support with experimental design and selection of appropriate library preparation kit (dependent on sample source, quality and quantity)
  • Experienced in processing a wide range of sample types with options for low input and/or degraded samples
  • End to end solutions for extraction, library preparation, sequencing and bioinformatics analysis
  • Provide basic and advanced bioinformatics analysis and data interpretation

Transcriptome Library Prep, Sequencing, and Analysis Service Offerings

Source Library Prep Options Analysis Offering
  • Cells
  • Tissues
  • Blood
  • FFPE
  • Curls
  • Purified Total RNA
  • Takara SMART-Seq V4
    (mRNA, non-stranded)
  • Illumina Truseq mRNA stranded
    (mRNA, stranded)
  • Takara SMART-Seq Stranded
    (total RNA, stranded)
  • Illumina TruSeq Stranded Total RNA
    (mouse, human, rat, bacteria)
    (ribozero, ribominus, or globin removal available)
  • SMARTer Stranded Total RNA v2- Pico Input
Standard Analysis Package
  • Raw Data
  • Alignment
  • FPKM Raw Read Count and Expression Estimate Output
  • Hierarchical Clustering Analysis
  • Clustering, PCA, Heatmap Correlation
  • Splicing Annotation
  • Gene Body Coverage
  • Strand Specificity (if applicable)
Advanced Analysis
  • Differential Expression Outputs - Heat map and Volcano Plots
  • Pathway Analysis, Gene Ontology Output and Figures
  • Tumor Microenvironment Analysis
  • Fusion Analysis

In addition to the NGS library preparation solutions, we offer extensive informatics solutions for whole-transcriptome profiling that ranges from standard gene expression analyses to advanced analyses of splicing, pathways, visualization and tertiary analyses to reveal heterogeneity and cell types in a population as well tumor microenvironment analyses. In addition to that we have solutions using machine learning approaches that utilize gene expression data to predict biomarkers and classify tissue types and diseases.

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