Application

Previous versions

Altius Institute





Description

   ▸ FORGE2 is the new version of FORGE, including new stats and multiple epigenetic datasets.

▸ FORGE2 identifies tissue- or cell type-specific signal by analysing a minimum set of 5 single nucleotide polymorphisms (SNPs) for overlap with epigenetic data peaks compared to matched background SNPs and provides both graphical and tabular outputs.

▸ FORGE2 incorporates data across DNase I hypersensitive sites (DHSs), histone mark chromatin immunoprecipitation (ChIP) broadpeaks, and hidden Markov model (HMM) chromatin states.
 		   

Data

Paste data:
Clear box
Upload file:
Provide file URL:
Input Options
Input file format:
Name (optional):
Platform:
Analysis Options
Analyse data from:
LD filtering:
Depletion:
Background repetitions (100-1000):
Significance threshold:
      Strict:
      Marginal:

Credits
Breeze, CE, Haugen, E, Reynolds, A, Teschendorff, A, van Dongen, J, Lan, Q, Rothman, N, Bourque, G, Dunham, I, Beck, S, Stamatoyannopoulos J, Franceschini, N, Berndt, SI (2022). Integrative analysis of 3604 GWAS reveals multiple novel cell type-specific regulatory associations. Genome Biology 23, 13. doi: 10.1186/s13059-021-02560-3
Breeze, C.E., Haugen, E., Gutierrez-Arcelus, M., Yao, X., Teschendorff, A., Beck, S., Dunham, I., Stamatoyannopoulos, J., Franceschini, N., Machiela, M., Berndt, S. (2022). FORGEdb: systematic analysis of candidate causal variants to uncover target genes and mechanisms in complex traits. bioRxiv 2022.11.14.516365. doi: 10.1101/2022.11.14.516365