circlncRNAnet

circlncRNAnet maps functional networks of long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) by integrating NGS- and RNA-seq-based expression data with curated reference databases to infer regulatory interactions and pathway-level functions.

Key Features:

• NGS/RNA-seq data support: Accepts user-provided next-generation sequencing (NGS) and RNA-seq expression datasets for analysis.
• Analytic modules: Modular analytic pipelines evaluate regulatory networks of selected non-coding RNAs by cross-referencing extensively curated databases.
• ncRNA scope: Accommodates analysis of multiple ncRNA classes, explicitly including lncRNAs and circRNAs.
• Output types: Produces expression profiles, co-expression networks, pathway annotations, and molecular interactomes.
• Hypothesis testing: Enables in silico hypothesis testing and validation using large-scale RNA-seq data.

Scientific Applications:

• Gene regulation insight: Maps interactions of lncRNAs and circRNAs with messenger RNAs (mRNAs) mediated by epigenetic and post-transcriptional mechanisms to elucidate regulatory roles.
• Network-centric functional interpretation: Provides a network perspective of ncRNA functions that complements existing databases by linking molecules to pathways and interactomes.
• In silico validation: Facilitates testing and validation of ncRNA-based functional hypotheses using large-scale RNA-seq datasets.

Methodology:

Integrates user-provided NGS/RNA-seq expression data with analytic modules to construct and assess regulatory networks, cross-references curated databases to assign functional roles to ncRNAs, and visualizes interactions within biological pathways and molecular interactomes.