Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 54
Release date: Jan 30 2018
Last update date: Nov 28 2018
Access: Public
Diseases: Carcinoma, Non-Small-Cell Lung, Neoplasms
Chemicals: Cisplatin, Carboplatin, Paclitaxel
Dataset link Telomerase-mediated Strategy for Overcoming Non-Small Cell Lung Cancer Targeted Therapy and Multi-drug Chemotherapy Resistance

Experimental Protocol


Gene expression from microarray and RNAseq data was used to compare resistant and sensitive NSCLC lines. The microarray data was a subset from GSE32036. RNA-seq raw data are only available for samples GSM2970438-GSM2970449 (those produced at GeneWiz). The submitter states that the raw data for samples GSM2970450-GSM2970491 will be made available under controlled access at dbGaP. The RNAseq data for GeneWiz samples is linked to Bioproject PRJNA431789 with SRA accession SRP131505 Microarray samples from GSE32036 were not re-analyzed. The log2 quantile-normalized values were used directly. Gene expression of 6-thio-dG sensitive and resistant cell lines was analyzed using a subset of 40 NSCLC samples from GSE32036 (sensitive lines had IC50 or equal to 10 microM). Using the processed data from the subset of 40 samples, statistically significant genes were determined using unpaired t-tests with Bonferroni correction (p<0.01). The data matrix of these re-used microarray data are included here for convenience. Also included is a text file with the 6-thio-dG status of the cell lines from the microarray study.

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Kimberly Batten