I have a big list of significant SNPs (>30K) from a GWAS/meta-analysis. Can you please suggest what are some best ways to find the respective gene names and further classify them as already reported and novel ones?
one thing important is to notify the species you're working on.
I guess it's human and in this case you can use VEP from ensemble (https://www.ensembl.org/info/docs/tools/vep/index.html) and follow the documentation to get through the analysis. VEP is not the only one prediction toll but it's smart.
You could try Phenoscanner (http://www.phenoscanner.medschl.cam.ac.uk/) where you can upload a file of SNPs, and it will tell you nearest genes and whether there are any associations known.