ArticleApplied intelligence (Dordrecht, Netherlands)2025
Non-local modeling of enhancer-promoter interactions, a correspondence on "LOCO-EPI: Leave-one-chromosome-out (LOCO) as a benchmarking paradigm for deep learning based prediction of enhancer-promoter interactions".
Article in Applied intelligence (Dordrecht, Netherlands), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- A transformer-based method for the cap analysis of gene expression and gene expression tag associated capping region prediction in RNA.RNA biology · 2026Article
- Non-local modeling of enhancer-promoter interactions, a correspondence on "LOCO-EPI: Leave-one-chromosome-out (LOCO) as a benchmarking paradigm for deep learning based prediction of enhancer-promoter interactions".Applied intelligence (Dordrecht, Netherlands) · 2025Article
- EPI-DynFusion: enhancer-promoter interaction prediction model based on sequence features and dynamic fusion mechanisms.Frontiers in genetics · 2025Article
- Hybrid representation learning for human mBioinformatics advances · 2025Article
Corrections and comments
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Authors and funding
1 author.
Funding
Abstract
A recent paper by Tahir et al 2024 in Applied Intelligence reported a computational model of enhancer promoter interactions without realizing that many of their conclusions were previously published in 2018. In addition to correcting this record, the authors appear to be unaware of an additional body of previous work on enhancer-promoter interactions, which can explain why their computational model performs poorly. We describe how the weak predictive power of their model is consistent with new insights gained from substantial recent progress in the area of detecting and modeling enhancer promoter interactions constrained by DNA looping, extrusion by cohesin, and CTCF.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.