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Transcription profiling of human cell lines from 9 different cancer tissue (NCI-60)

ABSTRACT: Comparison between cell lines from 9 different cancer tissue of origin types (Breast, Central Nervous System, Colon, Leukemia, Melanoma, Non-Small Cell Lung, Ovarian, Prostate, Renal) from NCI-60 panel Experiment Overall Design: cell lines from 9 different cancer tissue of origin types

ORGANISM(S): Homo sapiens

SUBMITTER: Shankavaram Uma

PROVIDER: S-ECPF-GEOD-5949 | biostudies-other |

REPOSITORIES: biostudies-other

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Transcription profiling of human cell lines from 9 different cancer tissue (NCI-60) (U133 platform)

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Transcription profiling of human cell lines from 9 different cancer tissue (NCI-60)

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Predicting enzyme targets for cancer drugs by profiling human metabolic reactions in NCI-60 cell lines.

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Transcription profiling of human cell lines from 9 different cancer tissue (NCI-60) (U133 platform)

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Expression of microRNAs in the NCI-60 cancer cell-lines.

Project description:The NCI-60 panel of 60 human cancer cell-lines of nine different tissues of origin has been extensively characterized in biological, molecular and pharmacological studies. Analyses of data from such studies have provided valuable information for understanding cellular processes and developing strategies for the diagnosis and treatment of cancer. Here, Affymetrix® GeneChip™ miRNA version 1 oligonucleotide microarrays were used to quantify 847 microRNAs to generate an expression dataset of 495 (58.4%) microRNAs that were identified as expressed in at least one cell-line of the NCI-60 panel. Accuracy of the microRNA measurements was partly confirmed by reverse transcription and polymerase chain reaction assays. Similar to that seen among the four existing NCI-60 microRNA datasets, the concordance of the new expression dataset with the other four was modest, with mean Pearson correlation coefficients of 0.37-0.54. In spite of this, comparable results with different datasets were noted in clustering of the cell-lines by their microRNA expression, differential expression of microRNAs by the lines' tissue of origin, and correlation of specific microRNAs with the doubling-time of cells or their radiation sensitivity. Mutation status of the cell-lines for the TP53, PTEN and BRAF but not CDKN2A or KRAS cancer-related genes was found to be associated with changes in expression of specific microRNAs. The microRNA dataset generated here should be valuable to those working in the field of microRNAs as well as in integromic studies of the NCI-60 panel.

| S-EPMC3509128 | biostudies-literature

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