AIMC Topic: Cohesins

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Predicting 3D genome folding from DNA sequence with Akita.

Nature methods Oct 12, 2020
In interphase, the human genome sequence folds in three dimensions into a rich variety of locus-specific contact patterns. Cohesin and CTCF (CCCTC-binding factor) are key regulators; perturbing the levels of either greatly disrupts genome-wide foldin...
Humans Neural Networks, Computer Models, Genetic Sequence Analysis, DNA DNA-Binding Proteins Gene Expression Regulation Genome, Human Cell Cycle Proteins CCCTC-Binding Factor Chromosomal Proteins, Non-Histone Cohesins
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DeepMILO: a deep learning approach to predict the impact of non-coding sequence variants on 3D chromatin structure.

Genome biology Mar 26, 2020
Non-coding variants have been shown to be related to disease by alteration of 3D genome structures. We propose a deep learning method, DeepMILO, to predict the effects of variants on CTCF/cohesin-mediated insulator loops. Application of DeepMILO on v...
Humans Neoplasms Deep Learning Cell Line, Tumor Mutation Whole Genome Sequencing Cell Cycle Proteins Chromatin CCCTC-Binding Factor Chromosomal Proteins, Non-Histone Insulator Elements Cohesins
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