Interface for the NGS association system. Both web browser and command line interfaces are supported. The web interface is dynamic and takes as input the output of Cufflinks or similar tool. The NGS association system is independent of any particular transcriptome reconstruction or quantitation tool or file format. Input formatting solely consists of an Ensembl Gene ID in the first column, and gene symbol or gene accession number in the second column, respectively. Additional columns/variables are able to be imported and conveyed in a seamless manner. Using association algorithms, the aim is to link Gene IDs or GeneBank accessions, and Gene symbols with corresponding Affy probe set-ID(s).