NCI60 Molecular Data

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Description

Z-scores of values for a variety of assays conducted on the NCI-60 to facilitate comparison. Z-scores calculated over the 60 cell lines for the given feature.

Details

A list containing various assay values:

  • cop Copy number values; Described in Pubmed ID: 24670534

  • exp Expression values; Obtained from "RNA: 5 Platform Gene Transcript" http://discover.nci.nih.gov/cellminer/loadDownload.do; Missing values imputed using the R package "impute"

  • mut Mutation values; Deleterious mutations obtained from TODO

  • mir MicroRNA values; Obtained from "RNA: Agilent Human microRNA (V2)" http://discover.nci.nih.gov/cellminer/loadDownload.do

  • pro Reverse protein lysate array values; Obtain from "Protein: Lysate Array" http://discover.nci.nih.gov/cellminer/loadDownload.do

  • mda NCI-60 metadata.

    • CNV_GAIN Proportion of genome copy number gains; Described in Pubmed ID: 24670534

    • CNV_LOSS Proportion of genome copy number losses; Described in Pubmed ID: 24670534

    • CNV_TOTAL Sum of CNV_GAIN and CNV_LOSS

    • P53_BIN Binary TP53 profile curated by William Reinhold

    • MSI_OGAN_BIN Binary microsatellite instability (MSI) profile curated by Ogan Abaan using COSMIC data; Obtained from Supplementary Table 1 - Ogan Whole Exome Sequencing (WES) paper in Cancer Res.

    • EPITHELIAL Epithelial by tissue of origin - pattern extracted from the CellMiner cell line metadata http://discover.nci.nih.gov/cellminer/celllineMetadata.do

    • EPITHELIAL_KURT Kurt Kohn curation for epithelial-like cell lines based on molecular parameters described in Pubmed ID: 24940735

    • DELETERIOUS Total deleterious variants from WES dataset; Fabricio Sousa curation

    • MISSENSE Total missense variants from WES dataset; Fabricio Sousa curation

    • SILENT Total silent variants from WES dataset; Fabricio Sousa curation

    • TOTAL_AA Total amino acid changing variants from WES dataset; Fabricio Sousa curation

    • CELL-CELL Cell-to-cell adhesion curated by William Reinhold

    • DOUBLINGTIME The doubling time pattern was extracted from the CellMiner cell line metadata http://discover.nci.nih.gov/cellminer/celllineMetadata.do

Author(s)

Vinodh Rajapakse vinodh.rajapakse AT nih.gov

References

http://discover.nci.nih.gov/cellminer

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