Transcriptomics,Genomics

Dataset Information

60

Gene expression analysis in Eight Homo sapiens Cell lines


ABSTRACT: Gene expression profiles for ~20,000 genes using Illumina Homo sapiensRef-8 v2 Overall design: Cell lines were picked to match cell lines that were assayed in a complimentary set of transient transfection promoter activity assays. Gene identifiers on the BeadArrays were matched to promoter predictions from SwitchGear Genomics (www.switchdb.com; score>20) for transcripts that were not associated with alternative promoters. The eight cell lines are: Ags, HeLa, HepG2, HT1080, HCT116, T98G, U87MG, and G402.

INSTRUMENT(S): Illumina humanRef-8 v2.0 expression beadchip

SUBMITTER: Preti Jain  

PROVIDER: GSE21045 | GEO | 2010-03-25

SECONDARY ACCESSION(S): PRJNA126427

REPOSITORIES: GEO

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Publications

Sequence features that drive human promoter function and tissue specificity.

Landolin Jane M JM   Johnson David S DS   Trinklein Nathan D ND   Aldred Shelly F SF   Medina Catherine C   Shulha Hennady H   Weng Zhiping Z   Myers Richard M RM  

Genome research 20100525 7


Promoters are important regulatory elements that contain the necessary sequence features for cells to initiate transcription. To functionally characterize a large set of human promoters, we measured the transcriptional activities of 4575 putative promoters across eight cell lines using transient transfection reporter assays. In parallel, we measured gene expression in the same cell lines and observed a significant correlation between promoter activity and endogenous gene expression (r = 0.43). A  ...[more]

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