Your browser doesn't support javascript.
loading
Step-by-Step Protocol to Generate Hi-C Contact Maps Using the rfy_hic2 Pipeline.
Tanizawa, Hideki; Chung, Claire Yik-Lok; Fuse, Shun-Ichiro; Hayashi, Tomomi; Weisel, Peter; Noma, Ken-Ichi.
Afiliação
  • Tanizawa H; Division of Genome Biology, Institute for Genetic Medicine, Hokkaido University, Sapporo, Japan. tanizawa@igm.hokudai.ac.jp.
  • Chung CY; Division of Genome Biology, Institute for Genetic Medicine, Hokkaido University, Sapporo, Japan.
  • Fuse SI; Division of Genome Biology, Institute for Genetic Medicine, Hokkaido University, Sapporo, Japan.
  • Hayashi T; Institute of Molecular Biology, University of Oregon, Eugene, OR, USA.
  • Weisel P; Institute of Molecular Biology, University of Oregon, Eugene, OR, USA.
  • Noma KI; Division of Genome Biology, Institute for Genetic Medicine, Hokkaido University, Sapporo, Japan. noma@uoregon.edu.
Methods Mol Biol ; 2856: 133-155, 2025.
Article em En | MEDLINE | ID: mdl-39283450
ABSTRACT
The Hi-C method has emerged as an indispensable tool for analyzing the 3D organization of the genome, becoming increasingly accessible and frequently utilized in chromatin research. To effectively leverage 3D genomics data obtained through advanced technologies, it is crucial to understand what processes are undertaken and what aspects require special attention within the bioinformatics pipeline. This protocol aims to demystify the Hi-C data analysis process for field newcomers. In a step-by-step manner, we describe how to process Hi-C data, from the initial sequencing of the Hi-C library to the final visualization of Hi-C contact data as heatmaps. Each step of the analysis is clearly explained to ensure an understanding of the procedures and their objectives. By the end of this chapter, readers will be equipped with the knowledge to transform raw Hi-C reads into informative visual representations, facilitating a deeper comprehension of the spatial genomic structures critical to cellular functions.
Assuntos
Palavras-chave
Texto completo
Adicionar na Minha BVS
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Software / Cromatina / Biologia Computacional / Genômica Limite: Humans Idioma: En Revista: Methods Mol Biol Assunto da revista: BIOLOGIA MOLECULAR Ano de publicação: 2025 Tipo de documento: Article País de afiliação: Japão País de publicação: Estados Unidos
Texto completo
Adicionar na Minha BVS
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Software / Cromatina / Biologia Computacional / Genômica Limite: Humans Idioma: En Revista: Methods Mol Biol Assunto da revista: BIOLOGIA MOLECULAR Ano de publicação: 2025 Tipo de documento: Article País de afiliação: Japão País de publicação: Estados Unidos