iNucs: Inter-nucleosome interactions

Mehrdad Oveisi; Manu Shukla; Nogayhan Seymen; Masae Ohno; Yuichi Taniguchi; Sunil Nahata; Remco Loos; Ghulam J Mufti; Robin C Allshire; Stefan Dimitrov; Mohammad M Karimi; Pier Luigi Martelli

doi:10.1093/bioinformatics/btab698

iNucs: Inter-nucleosome interactions

Mehrdad Oveisi, Manu Shukla, Nogayhan Seymen, Masae Ohno, Yuichi Taniguchi, Sunil Nahata, Remco Loos, Ghulam J Mufti, Robin C Allshire, Stefan Dimitrov, Mohammad M Karimi, Pier Luigi Martelli (Editor)

School of Biological Sciences

Research output: Contribution to journal › Article › peer-review

Abstract

Motivation
Deciphering nucleosome–nucleosome interactions is an important step toward mesoscale description of chromatin organization but computational tools to perform such analyses are not publicly available.

Results
We developed iNucs, a user-friendly and efficient Python-based bioinformatics tool to compute and visualize nucleosome-resolved interactions using standard pairs format input generated from pairtools.

Original language	English
Pages (from-to)	4562-4563
Number of pages	1
Journal	Bioinformatics
Volume	37
Issue number	23
Early online date	8 Oct 2021
DOIs	https://doi.org/10.1093/bioinformatics/btab698
Publication status	Published - 1 Dec 2021

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10.1093/bioinformatics/btab698Licence: Creative Commons: Attribution (CC-BY)

KarimiEtalGA2021iNucsInterNucleosomeInteractionsFinal published version, 310 KBLicence: Creative Commons: Attribution (CC-BY)

Core funding for the Wellcome Centre for Cell Biology
Marston, A. (Principal Investigator)
UK-based charities
1/12/21 → 30/11/23
Project: Research
Epigenetic inheritance: establishment and transmission of specialised chromatin domains
Allshire, R. (Principal Investigator)
UK-based charities
1/04/17 → 31/03/23
Project: Research
How centromeres are specified: the interplay between hetrochromatin, CENP-A chromatin, and kinetochore assembly
Allshire, R. (Principal Investigator)
UK-based charities
1/04/12 → 31/03/22
Project: Research

Cite this

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abstract = "MotivationDeciphering nucleosome–nucleosome interactions is an important step toward mesoscale description of chromatin organization but computational tools to perform such analyses are not publicly available.ResultsWe developed iNucs, a user-friendly and efficient Python-based bioinformatics tool to compute and visualize nucleosome-resolved interactions using standard pairs format input generated from pairtools.",

author = "Mehrdad Oveisi and Manu Shukla and Nogayhan Seymen and Masae Ohno and Yuichi Taniguchi and Sunil Nahata and Remco Loos and Mufti, {Ghulam J} and Allshire, {Robin C} and Stefan Dimitrov and Karimi, {Mohammad M} and {Luigi Martelli}, Pier",

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AU - Oveisi, Mehrdad

AU - Shukla, Manu

AU - Seymen, Nogayhan

AU - Ohno, Masae

AU - Taniguchi, Yuichi

AU - Nahata, Sunil

AU - Loos, Remco

AU - Mufti, Ghulam J

AU - Allshire, Robin C

AU - Dimitrov, Stefan

AU - Karimi, Mohammad M

A2 - Luigi Martelli, Pier

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AB - MotivationDeciphering nucleosome–nucleosome interactions is an important step toward mesoscale description of chromatin organization but computational tools to perform such analyses are not publicly available.ResultsWe developed iNucs, a user-friendly and efficient Python-based bioinformatics tool to compute and visualize nucleosome-resolved interactions using standard pairs format input generated from pairtools.

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JF - Bioinformatics

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iNucs: Inter-nucleosome interactions

Abstract

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Projects

Core funding for the Wellcome Centre for Cell Biology

Epigenetic inheritance: establishment and transmission of specialised chromatin domains

How centromeres are specified: the interplay between hetrochromatin, CENP-A chromatin, and kinetochore assembly

Cite this