ncRNAwsdl

ncRNAwsdl provides programmatic SOAP access to the NONCODE database for retrieval of integrated expression and functional data on long noncoding RNAs (lncRNAs).

Key Features:

• Integrated expression and functional lncRNA data: Compilation of expression profiles and functional annotations for lncRNAs derived from re-annotated microarray studies.
• Genome visualization: A local Genome Browser is provided for visualization of lncRNA loci and associated annotations.
• Sequence-alignment search: A built-in BLAST server enables sequence-alignment searches against the database.
• Data access and distribution: Data can be retrieved via direct download, SOAP API, and DAS services.

Scientific Applications:

• Imprinting control studies: Analysis of lncRNAs implicated in genomic imprinting regulation.
• Pluripotency and differentiation circuitry: Investigation of lncRNA roles in pluripotency maintenance and differentiation pathways.
• Immune response research: Examination of lncRNA involvement in immune regulatory processes.
• Chromosome dynamics: Study of lncRNA contributions to chromosome structure and dynamics.
• Disease association analyses: Exploration of lncRNA associations with disease etiology.

Methodology:

Re-annotation of microarray studies and integration of expression and functional lncRNA data, provision of a local Genome Browser for visualization, a BLAST server for sequence-alignment searches, and data distribution via SOAP API and DAS services.