Microarray Meta-Analysis and Cross-Platform Normalization: Integrative Genomics for Robust Biomarker Discovery

The diagnostic and prognostic potential of the vast quantity of publicly-available microarray data has driven the development of methods for integrating the data from different microarray platforms. Cross-platform integration, when appropriately implemented, has been shown to improve reproducibility and robustness of gene signature biomarkers. Microarray platform integration can be conceptually divided into approaches that perform early stage integration (cross-platform normalization) versus late stage data integration (meta-analysis). A growing number of statistical methods and associated software for platform integration are available to the user, however an understanding of their comparative performance and potential pitfalls is critical for best implementation. In this review we provide evidence-based, practical guidance to researchers performing cross-platform integration, particularly with an objective to discover biomarkers.

• Publication year

  2015

• Venue

  Microarrays

• Publication date

  2015-08-21

• Fields of study

  Biology, Medicine, Computer Science

• Identifiers
  DOI 10.3390/microarrays4030389PMID 27600230PMCID 4996376
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• Evidence-based practical guidance is provided for researchers using cross-platform integration to support biomarker discovery.

  Confidence 0.92

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review
• Comparing the performance and pitfalls of available platform-integration methods is presented as essential for choosing an implementation strategy.

  Confidence 0.89

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review
• Cross-platform integration is organized into two main approaches: early-stage normalization and late-stage meta-analysis.

  Confidence 0.97

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review

• biomarker discovery

  application

  The task of identifying biomolecular markers or gene signatures from integrated microarray data.

  Aliases: discover biomarkers

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review
• cross-platform integration

  process

  Combining microarray datasets generated on different platforms into a shared analysis framework.

  Aliases: platform integration

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review
• cross-platform normalization

  method

  An integration approach that harmonizes data across platforms before downstream analysis.

  Aliases: early-stage integration

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review
• meta-analysis

  method

  An integration approach that combines results after separate analyses of different datasets.

  Aliases: late-stage data integration

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review
• platform-integration methods

  method

  The computational procedures and tools used to perform integration across microarray platforms.

  Aliases: statistical methods and software, methods and associated software

  박진우 (dztg5apj7m) extractionB (s683577b42) reviewq (76h6bfydm6) reviewAK (4715169a40) review

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