LimeNex

LimeNex integrates metabolic and transcriptional regulatory layers to enable system-level exploration of lipid biochemical gene-regulatory networks across human tissues and physiological systems.

Key Features:

• Pathway Console: Queries lipids for visualization of lipid pathways and genes involved in lipid-enzyme reactions.
• Reaction Console: Queries enzymes for interactive network visualizations and literature-backed evidence tables.
• TF-Gene Console: Queries transcription factors to explore tissue and system-specific transcriptional regulators of target genes.
• Network Visualization: Provides interactive network visualizations linking lipids, enzymes, and transcription factors.
• Data Export: Supports exportable data in SVG, JSON, and CSV formats.
• Tissue and System Mapping: Maps 330 enzymatic genes and 345 transcription factors across 50 human tissues and 11 physiological systems.
• Curated Reaction Database: Contains 504 curated biochemical reactions across 22 lipid pathways.

Scientific Applications:

• Lipid Metabolism Research: Enables hypothesis-driven investigation of lipid metabolism and related disorders by integrating metabolic and regulatory layers.
• Transcriptional Regulation Analysis: Supports exploration of upstream transcriptional regulatory mechanisms governing lipid metabolic genes.
• Tissue-Specific Metabolic Studies: Facilitates investigation of lipid metabolism across diverse human tissues and physiological systems.
• Disease Mechanism Investigation: Aids in understanding lipid imbalance and pathological conditions resulting from disruption of enzymatic or transcriptional machinery.

Methodology:

LimeNex integrates carefully curated biochemical reactions with transcription factor regulatory data in a tissue-resolved framework, linking lipids, enzymes, and transcription factors through manual curation and mapping to 50 human tissues and 11 physiological systems.