Jakob Zerbs's Projects
Comparison of Hi-C Experiments using Structural Similarity.
Kaggle Competition
A GAN-based method for Enhancing Hi-C data
DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data
Kaggle Competition
Joint normalization of multiple Hi-C matrices, visualization and detection of differential chromatin interactions, supporting covariates.
A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
Labs for SYDE 372: Intro to Pattern Recognition
TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FASTQ files to obtain raw interaction binned matrices (Hi-C like matrices), normalize and correct interaction matrices, identify and compare the so-called Topologically Associating Domains (TADs), build 3D models from the interaction matrices, and finally, extract structural properties from the models. TADbit is complemented by TADkit for visualizing 3D models