LINCS Canvas Browser (LCB)

LINCS Canvas Browser (LCB) enables exploration and analysis of gene expression signatures generated by the LINCS L1000 assay to identify enriched gene sets and matching experimental conditions.

Key Features:

• Interactive visualization: Two compacted layered canvases display clustered LINCS L1000 expression data and enrichment results across 30 gene set libraries.
• Enrichment analysis: Identifies gene sets enriched for differentially expressed genes for selected experimental conditions.
• Search and matching: Accepts custom gene lists and queries them against over 100,000 experimental conditions to return top-matching experiments.
• Data and tool integration: Connects multiple datasets and analytical resources for systems biology and systems pharmacology analyses.

Scientific Applications:

• Systems biology: Enables analysis of large-scale gene expression patterns across perturbations.
• Systems pharmacology: Supports identification and comparison of drug response signatures from compound-induced expression profiles.
• Disease mechanism investigation: Facilitates discovery of differential expression signatures relevant to disease states.
• Therapeutic target and biomarker discovery: Aids prioritization of candidate targets and biomarkers from enriched gene sets and matching experiments.

Methodology:

Analyzes LINCS L1000 expression profiles using clustering techniques and differential expression followed by enrichment analysis against 30 gene set libraries, and supports querying custom gene lists against over 100,000 experimental conditions.