Computational protocol: IGFBP-4 tumor and serum levels are increased across all stages of epithelial ovarian cancer

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Protocol publication

[…] Epithelial ovarian cancer transcriptomes were prepared for paired-end sequencing using the Illumina GAII platform by the manufacturer's protocols and with a second size selection step to reduce ligation artifacts. Reads were aligned using the software program ELAND32 (provided with the Illumina sequencing platform). Expression levels were quantified by running ERANGE v. 3.0.2. []. For each gene, ERANGE reported the number of mapped reads per kilobase of exon per million mapped reads (RPKM). […]

Pipeline specifications

Software tools ELAND, ERANGE
Application RNA-seq analysis
Organisms Homo sapiens, Tragelaphus oryx
Diseases Neoplasms, Ovarian Neoplasms