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Is PanCan data microarray or rna-seq

Hi, I would like to use the PanCanAtlas dataset, the expression data (EBPlusPlusAdjustPANCAN_IlluminaHiSeq_RNASeqV2.geneExp.tsv) from the download page appears to be rna-seq data. But in some old papers which also use the PanCanAtlas dataset, they refer to these data as microarrays.

I am wondering if PanCanAtlas run their samples (previously ran as microarray) again with rna-seq, or only part of the data is rna-seq data?

pancan rna rna-seq microarray data
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written by survive • survive

1 answer

Illumina HiSeq is a sequencing machine / platform, so RNA-seq, not array.

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written by ATpoint ATpoint

Hi, so this paper uses the TCGA dataset and in the supplementary information, it mentions the TCGAOVARIAN dataset uses the GPL4685 which is [U133AAofAv2] Affymetrix GeneChip HT-HG_U133A Early Access Array and it's array?

thank you.

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written by solarchan7 • solarchan7

So both arrays and rna-seq have been performed on the same samples?

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written by survive • survive

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