Hi-C Data Analysis

Normalization of Chromosome Contact Maps: Matrix Balancing and Visualization.- Methods to Assess the Reproducibility and Similarity of Hi-C Data.- Methods for the Analysis of Topological Associating Domains (TADs).- Methods for the Differential Analysis of Hi-C D.- Visualising and Annotating Hi-C Data.- Hi-C Data Formats.- Analysis of Hi-C Data for Discovery of Structural Variations In Cancer.- Metagenomes Binning using Proximity-Ligation Data.- Generating High-resolution Hi-C Contact Maps Of Bacteria.- Computational Tools for the Multiscale Analysis of HiC Data in Bacterial Chromosomes.- Analysis of HiChIP Data.- The Physical Behavior of Interphase Chromosomes: Polymer Theory and Coarse-Grain Computer Simulations.- Polymer Folding Simulations from Hi-C Data.- Predictive Polymer Models for 3D Chromosome Organization.- Polymer Modeling of 3D Epigenome Folding: Application to Drosophila.- A Polymer Physics Model To Dissect Genome Organization In Healthy And Pathological Phenotypes.- The 3D Organization of Chromatin Colors in Mammalian Nuclei.- Modeling the 3D Genome using Hi-C and Nuclear Lamin-Genome Contacts.