Pre-generated flat files

There are some pre-generated flat files used by this web server that you can download to use with the standalone version for bigger input files.

SVM Models

1. eQTL-DNase.macs2-H2A.Z-H3K27ac-H3K4me1-H3K4me2-H3K4me3-P300
2. dsQTL-DNase.macs2-H2A.Z-H3K27ac-H3K4me1-H3K4me2-H3K4me3-P300
3. dsQTL-DNase.macs2-H3K27ac-H3K4me1-H3K4me2-H3K4me3
4. eQTL-DNase.macs2-H3K27ac-H3K4me1-H3K4me2-H3K4me3
5. eQTL-DNase.macs2-H2A.Z-H3K27ac-H3K4me1-H3K4me2-H3K4me3
6. dsQTL-DNase.macs2-H2A.Z-H3K27ac-H3K4me1-H3K4me2-H3K4me3
7. eQTL-DNase.macs2-H3K27ac-H3K4me1-H3K4me3
8. dsQTL-DNase.macs2-H3K27ac-H3K4me1-H3K4me3

Note

When you use the standalone version of CAPE to generate the model, please also include P300, H2A.Z, H3K9ac and the essential known TF ChIP-seq peaks if they are available in the corresponding tissue.

1. Shan, L.; Vera, R.; Sharan, R.; Landsman, D. and Ovcharenko, I. Quantifying deleterious effects of regulatory variants, Nucleic Acids Research. (2016) (DOI: 10.1093/nar/gkw1263):
2. Shan, L.; and Ovcharenko, I. Human Enhancers Are Fragile and Prone to Deactivating Mutations, Mol Biol Evol. (2015) 32 (8):2161-2180