Journal: Biomedical Research and Therapy

Article Title: Optimizing RNA extraction and library preparation from oral squamous cell carcinoma FFPE samples for next-generation RNA sequencing

doi: 10.15419/bmrat.v10i10.840

Figure Lengend Snippet: Figure 1: Study design and workflow. Schematic of the sample flow through 2 protocols. The cDNA concentra- tion after stages I and II were represented by the Lib-1 and Lib-2 indices, respectively. While the NEBNext rRNA Depletion method only executed one stage with Illumina NEBNext Ultra II RNA Library Kit, both Lib-1 and Lib-2 serve as the final cDNA concentrations suitable for RNA sequencing.

Article Snippet: The stage I cDNA concentrations (lib1) were significantly higher with the exome capture-based method than with the NEBNext rRNA depletion method (p < 0.001), possibly because the total RNA was handled less in the exome-capture method (reverse transcription only) than in the rRNA depletionmethod (rRNA depletion and reverse transcription), providing less opportunity for it to degrade.

Techniques: RNA Sequencing

Journal: Biomedical Research and Therapy

Article Title: Optimizing RNA extraction and library preparation from oral squamous cell carcinoma FFPE samples for next-generation RNA sequencing

doi: 10.15419/bmrat.v10i10.840

Figure Lengend Snippet: Figure 3: The relationship between library cDNA concentration by 2 methods. Lib-1 was the cDNA concen- tration after stage I with the NEBNext RNA library procedure, while Lib-2 was the cDNA concentration after stage II with the xGen hybridization capture procedure.

Article Snippet: The stage I cDNA concentrations (lib1) were significantly higher with the exome capture-based method than with the NEBNext rRNA depletion method (p < 0.001), possibly because the total RNA was handled less in the exome-capture method (reverse transcription only) than in the rRNA depletionmethod (rRNA depletion and reverse transcription), providing less opportunity for it to degrade.

Techniques: Concentration Assay, Hybridization