title: RNA-seq of SCCIS: Sample 44716_tum
design: "RNA samples with quantities greater than 2.5 ng/uL and with 30% of their total fragment size greater than 200 nucleotides (DV200 > 30%) are used for Whole Transcriptome RNA Sequencing. Selected RNA is depleted of specific rRNA sequences: mitochondrial, 5S, 5.8S, 18S, and 28S, using an enzyme based assay (Clonetech) and are then synthesized into cDNA, PCR amplified, and purified as described by SMARTer Universal Low Input RNA Kit for Sequencing (Clonetech). Amplified cDNA libraries are validated using the Bioanalyzer (Agilent) with the DNA high sensitivity chip, and only libraries with distinct peaks spanning 100-1,000 bp that also peak around 200 bp and whose yield is greater than 2 ng of cDNA are chosen for Next Generation Sequencing DNA library synthesis. The sequence-ready transcriptome libraries are constructed using a low input library platform (Clonetech) and quantified using the Bioanalyzer (Agilent) with the DNA high sensitivity chip. They are then pooled into equimolar amounts for paired end sequencing."
library_name: 44716_tum_rna