DeepSEA (Beluga) | Trained on 2,002 chromatin profile features, including DNase hypersensitivity and ChIP-seq profiles. The complete list of features used to train Beluga can be found at this CSV file. |
Sei | Trained on 21,907 chromatin profiles, including DNase hypersensitivity, ChIP-seq, and ATAC-seq profiles. The list of profiles incorporated in the Sei model can be found in Supplementary Table 1 of Chen et al 2022. |
ExPecto | Incorporated the Beluga chromatin profile model as well as 218 tissue expression profiles from GTEx, Roadmap Epigenomics and ENCODE (Zhou et al. 2018). |
ExPectoSC | Incorporated the Beluga chromatin profile model as well as single-cell gene expression profiles for over 100 cell types from seven organ systems (listed in Supplementary Table 1 of Sokolova et al. 2023). |
Seqweaver | Trained using data from 232 cross-linking immunoprecipitation (CLIP) based RNA binding protein datasets (Supplementary Table 1 of Park et al. 2021). |