FreeHi-C simulates high-fidelity Hi-C data for benchmarking and data augmentation

Ye Zheng; Sündüz Keleş

doi:10.1038/s41592-019-0624-3

FreeHi-C simulates high-fidelity Hi-C data for benchmarking and data augmentation

Ye Zheng
, Sündüz Keleş

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

15 Scopus citations

Abstract

The ability to simulate high-throughput chromatin conformation (Hi-C) data is foundational for benchmarking Hi-C data analysis methods. Here we present a nonparametric strategy named FreeHi-C to simulate Hi-C data from the interacting genome fragments. Data from FreeHi-C exhibit high fidelity to biological Hi-C data. FreeHi-C boosts the precision and power of differential chromatin interaction detection through data augmentation under preserved false discovery rate control.

Original language	English (US)
Pages (from-to)	37-40
Number of pages	4
Journal	Nature Methods
Volume	17
Issue number	1
DOIs	https://doi.org/10.1038/s41592-019-0624-3
State	Published - Jan 1 2020
Externally published	Yes

ASJC Scopus subject areas

Biotechnology
Biochemistry
Molecular Biology
Cell Biology

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10.1038/s41592-019-0624-3

Cite this

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abstract = "The ability to simulate high-throughput chromatin conformation (Hi-C) data is foundational for benchmarking Hi-C data analysis methods. Here we present a nonparametric strategy named FreeHi-C to simulate Hi-C data from the interacting genome fragments. Data from FreeHi-C exhibit high fidelity to biological Hi-C data. FreeHi-C boosts the precision and power of differential chromatin interaction detection through data augmentation under preserved false discovery rate control.",

author = "Ye Zheng and S{\"u}nd{\"u}z Kele{\c s}",

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AU - Keleş, Sündüz

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N2 - The ability to simulate high-throughput chromatin conformation (Hi-C) data is foundational for benchmarking Hi-C data analysis methods. Here we present a nonparametric strategy named FreeHi-C to simulate Hi-C data from the interacting genome fragments. Data from FreeHi-C exhibit high fidelity to biological Hi-C data. FreeHi-C boosts the precision and power of differential chromatin interaction detection through data augmentation under preserved false discovery rate control.

AB - The ability to simulate high-throughput chromatin conformation (Hi-C) data is foundational for benchmarking Hi-C data analysis methods. Here we present a nonparametric strategy named FreeHi-C to simulate Hi-C data from the interacting genome fragments. Data from FreeHi-C exhibit high fidelity to biological Hi-C data. FreeHi-C boosts the precision and power of differential chromatin interaction detection through data augmentation under preserved false discovery rate control.

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EP - 40

JO - Nature Methods

JF - Nature Methods

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ER -

FreeHi-C simulates high-fidelity Hi-C data for benchmarking and data augmentation

Abstract

ASJC Scopus subject areas

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