LincSNP 3.0 is an updated database that aims specifically to store and annotate disease or phenotype-associated variants including single nucleotide polymorphisms (SNPs), linkage disequilibrium SNP (LD SNP), somatic mutation and RNA editing in human long noncoding RNAs (lncRNAs) and circular RNAs (circRNAs) or their regulatory elements including transcription factor binding sites (TFBSs), enhancer, DNase I hypersensitive site (DHS), topologically associated domain (TAD), footprints and open chromatin region. In addition, the effects of SNP on methylation in lncRNAs and circRNAs are also included. Some useful tools are also provided to bridge the gap between functional variants and human lncRNAs or circRNAs to enhance our understanding of lncRNA and circRNA function, particularly the potential roles in human disease.

1. More types of variants including single nucleotide polymorphisms (SNPs), linkage disequilibrium SNP (LD SNP), somatic mutations and RNA editing sites have been expanded.
2. More regulatory elements including transcription factor binding sites (TFBSs), enhancer, DNase I hypersensitive site (DHS), topologically associated domain (TAD), footprints and open chromatin region have been added.
3. The associations among circRNAs, regulatory elements and variants have been identified.
4. More experimentally supported variants-lncRNA/circRNA-disease/phenotype associations have been manually collected
5. More flexible online tools have been developed to retrieve and analyze the data.
6. The sources of lncRNAs, circRNAs, SNP, somatic mutation and RNA editing sites have been updated.
7. All the information have been updated to GRCh38.