Illumina gene-expression microarray
Overview
Hybridization-based gene-expression profiling using Illumina BeadChip arrays (e.g., HT-12). RNA from tumor or normal tissue is labelled and hybridized to bead-bound oligonucleotide probes; signal intensities proxy mRNA abundance for ~47,000 transcripts. Output is FPKM-scale expression per probe set, suitable for differential expression, clustering, and correlation with imaging or clinical features.
Used by
- PMID:30325352 — Illumina HT-12 gene-expression microarrays applied to 26 of 211 NSCLC subjects in the nsclc-radiogenomics-stanford radiogenomic dataset; 17 subjects have overlapping RNA-seq data; raw data deposited at GEO accession GSE28827 PMID:30325352.
- Illumina gene-expression microarray used alongside SNP arrays in METABRIC to derive integrative clustering of ~2,000 breast tumors into 10 subtypes PMID:22522925
- Used for copy number variation analysis in colorectal cancer PMID:23897969
- HumanHT-12 v4 Expression BeadChip (Illumina) used for gene-expression profiling of 118 CCA tumors; HumanOmniExpress SNP arrays used for copy-number analysis of 175 cases in the ICGC cholangiocarcinoma cohort PMID:28667006
Notes
- In the NSCLC radiogenomics dataset, the microarray arm (n=26) is substantially smaller than the RNA-seq arm (n=130) and is provided for completeness rather than as the primary expression layer PMID:30325352.
- The Illumina HT-12 array targets ~47,000 transcripts; direct comparison with RNA-seq FPKM values requires normalization and probe-gene mapping.
Sources
This page was processed by crosslinker on 2026-05-09. - PMID:22522925
This page was processed by crosslinker on 2026-05-09. - PMID:23897969
This page was processed by crosslinker on 2026-05-09. - PMID:28667006
This page was processed by wiki-cli on 2026-05-15.