Hi-C Data Analysis : Methods and Protocols / edited by Silvio Bicciato, Francesco Ferrari.

Format:

Book

Contributor:

Bicciato, Silvio, Editor.

Ferrari, Francesco, Editor.

SpringerLink (Online service)

Series:

Springer Protocols (Springer-12345)

Methods in molecular biology 1940-6029 ; 2301

Methods in Molecular Biology, 1940-6029 ; 2301

Language:

English

Subjects (All):

Bioinformatics.

Computational and Systems Biology.

Local Subjects:

Bioinformatics.

Computational and Systems Biology.

Physical Description:

1 online resource (XIII, 354 pages) : 62 illustrations, 58 illustrations in color.

Edition:

1st ed. 2022.

Contained In:

Springer Nature eBook

Place of Publication:

New York, NY : Springer US : Imprint: Humana, 2022.

System Details:

text file PDF

Summary:

This volume details a comprehensive set of methods and tools for Hi-C data processing, analysis, and interpretation. Chapters cover applications of Hi-C to address a variety of biological problems, with a specific focus on state-of-the-art computational procedures adopted for the data analysis. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Hi-C Data Analysis: Methods and Protocols aims to help computational and molecular biologists working in the field of chromatin 3D architecture and transcription regulation.

Contents:

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.

Other Format:

Printed edition:

ISBN:

978-1-0716-1390-0

9781071613900

Access Restriction:

Restricted for use by site license.