Computational protocol: Recurrent activating mutation in PRKACA in cortisol-producing adrenal tumors

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Protocol publication

[…] Ribosomal RNA (rRNA) was removed from total RNA using the Ribo-Zero rRNA Removal Kit (Epicenter) according to manufacturer’s instructions. cDNA was synthesized and libraries prepared using the Illumina RNA-Seq kit, followed by sequencing on Illumina HiSeq instrument. RNAseq data for normal adrenal gland was obtained from the Illumina Human Body Map 2.0 Project. Sequences were aligned using TopHat version 2.08 and assembled into transcripts using Cufflinks version 2.0.2,. […]

Pipeline specifications

Software tools TopHat, Cufflinks
Application RNA-seq analysis
Diseases Adenoma, Carcinoma, Cushing Syndrome, Neoplasms
Chemicals Hydrocortisone