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RNAseq of matched normal epithelium, oral dysplasia and oral squamous cell carcinoma using strand-specific methods that capture both coding and non-coding genes

Identifiers: SRA: ERP005938
BioProject: PRJEB6413
LICAP: ena-STUDY-LICAP-29-05-2014-11:31:14:534-505
Study Type: 
Population Genomics
Abstract: Whole transcriptome sequencing of 19 matched patient sample trios: normal oral epithelium, oral dysplasia and oral squamous cell carcinoma from the same patent. All material is from FFPE blocks that have been stained and sections and had sample histology confirmed by 2 independent pathologists. A ScriptSeq library kit was used to create strand specific 100bp paired-end sequencing libraries following RiboZero treatment to deplete rRNA. Both coding and non-coding RNA <200bp is sequenced on an Illumina HiSeq2500 with an average of 4 samples per lane.
Description: Whole transcriptome sequencing of 19 matched patient sample trios: normal oral epithelium, oral dysplasia and oral squamous cell carcinoma from the same patent. All material is from FFPE blocks that have been stained and sections and had sample histology confirmed by 2 independent pathologists. A ScriptSeq library kit was used to create strand specific 100bp paired-end sequencing libraries following RiboZero treatment to deplete rRNA. Both coding and non-coding RNA <200bp is sequenced on an Illumina HiSeq2500 with an average of 4 samples per lane.

Related SRA data

Experiments:
57 ( 57 samples )
Runs:
57 (295.4Gbp; 127.4Gb)