3DeFDR: statistical methods for identifying cell type-specific looping interactions in 5C and Hi-C data

Autor:	Lindsey R. Fernandez, Thomas G. Gilgenast, Jennifer E. Phillips-Cremins
Jazyk:	angličtina
Rok vydání:	2020
Předmět:	3D chromatin looping interactions Higher-order chromatin architecture Epigenetics Chromosome-conformation-capture Chromatin dynamics False discovery rate Biology (General) QH301-705.5 Genetics QH426-470
Zdroj:	Genome Biology, Vol 21, Iss 1, Pp 1-44 (2020)
Druh dokumentu:	article
ISSN:	1474-760X
DOI:	10.1186/s13059-020-02061-9
Popis:	Abstract An important unanswered question in chromatin biology is the extent to which long-range looping interactions change across developmental models, genetic perturbations, drug treatments, and disease states. Computational tools for rigorous assessment of cell type-specific loops across multiple biological conditions are needed. We present 3DeFDR, a simple and effective statistical tool for classifying dynamic loops across biological conditions from Chromosome-Conformation-Capture-Carbon-Copy (5C) and Hi-C data. Our work provides a statistical framework and open-source coding libraries for sensitive detection of cell type-specific loops in high-resolution 5C and Hi-C data from multiple cellular conditions.
Databáze:	Directory of Open Access Journals
Externí odkaz:	https://doaj.org/article/f6f28a72c6554909b16e42458de0b244 Zobrazit plný text záznamu Full text from SpringerLink View record in DOAJ