Identification of significant chromatin contacts from HiChIP data by FitHiChIP
Published 2019 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Identification of significant chromatin contacts from HiChIP data by FitHiChIP
Authors
Keywords
-
Journal
Nature Communications
Volume 10, Issue 1, Pages -
Publisher
Springer Science and Business Media LLC
Online
2019-09-17
DOI
10.1038/s41467-019-11950-y
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens
- (2019) Molly Gasperini et al. CELL
- Oncogenic Notch Promotes Long-Range Regulatory Interactions within Hyperconnected 3D Cliques
- (2019) Jelena Petrovic et al. MOLECULAR CELL
- HiChIRP reveals RNA-associated chromosome conformation
- (2019) Maxwell R. Mumbach et al. NATURE METHODS
- MAPS: Model-based analysis of long-range chromatin interactions from PLAC-seq and HiChIP experiments
- (2019) Ivan Juric et al. PLoS Computational Biology
- hichipper: a preprocessing pipeline for calling DNA loops from HiChIP data
- (2018) Caleb A Lareau et al. NATURE METHODS
- Dissecting super-enhancer hierarchy based on chromatin interactions
- (2018) Jialiang Huang et al. Nature Communications
- Enhancer connectome in primary human cells identifies target genes of disease-associated DNA elements
- (2017) Maxwell R Mumbach et al. NATURE GENETICS
- An integrated model for detecting significant chromatin interactions from high-resolution Hi-C data
- (2017) Mark Carty et al. Nature Communications
- Super-Enhancers and Broad H3K4me3 Domains Form Complex Gene Regulatory Circuits Involving Chromatin Interactions
- (2017) Fan Cao et al. Scientific Reports
- Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters
- (2016) Biola M. Javierre et al. CELL
- Mapping of long-range chromatin interactions by proximity ligation-assisted ChIP-seq
- (2016) Rongxin Fang et al. CELL RESEARCH
- HiChIP: efficient and sensitive analysis of protein-directed genome architecture
- (2016) Maxwell R Mumbach et al. NATURE METHODS
- Systematic mapping of functional enhancer–promoter connections with CRISPR interference
- (2016) Charles P. Fulco et al. SCIENCE
- Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments
- (2016) Neva C. Durand et al. Cell Systems
- Mango: a bias-correcting ChIA-PET analysis pipeline
- (2015) Douglas H. Phanstiel et al. BIOINFORMATICS
- A hidden Markov random field-based Bayesian method for the detection of long-range chromosomal interactions in Hi-C data
- (2015) Zheng Xu et al. BIOINFORMATICS
- Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C
- (2015) Borbala Mifsud et al. NATURE GENETICS
- A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
- (2014) Suhas S.P. Rao et al. CELL
- Control of Cell Identity Genes Occurs in Insulated Neighborhoods in Mammalian Chromosomes
- (2014) Jill M. Dowen et al. CELL
- Genome-wide map of regulatory interactions in the human genome
- (2014) Nastaran Heidari et al. GENOME RESEARCH
- Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts
- (2014) F. Ay et al. GENOME RESEARCH
- A statistical model of ChIA-PET data for accurate detection of chromatin 3D interactions
- (2014) Jonas Paulsen et al. NUCLEIC ACIDS RESEARCH
- Exploring long-range genome interactions using the WashU Epigenome Browser
- (2013) Xin Zhou et al. NATURE METHODS
- HiCNorm: removing biases in Hi-C data via Poisson regression
- (2012) Ming Hu et al. BIOINFORMATICS
- Topological domains in mammalian genomes identified by analysis of chromatin interactions
- (2012) Jesse R. Dixon et al. NATURE
- Spatial partitioning of the regulatory landscape of the X-inactivation centre
- (2012) Elphège P. Nora et al. NATURE
- Iterative correction of Hi-C data reveals hallmarks of chromosome organization
- (2012) Maxim Imakaev et al. NATURE METHODS
- Fast gapped-read alignment with Bowtie 2
- (2012) Ben Langmead et al. NATURE METHODS
- Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation
- (2012) Davis J. McCarthy et al. NUCLEIC ACIDS RESEARCH
- A three-dimensional model of the yeast genome
- (2010) Zhijun Duan et al. NATURE
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- ChIP-based methods for the identification of long-range chromatin interactions
- (2009) Melissa J. Fullwood et al. JOURNAL OF CELLULAR BIOCHEMISTRY
- Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
- (2009) E. Lieberman-Aiden et al. SCIENCE
- Model-based Analysis of ChIP-Seq (MACS)
- (2008) Yong Zhang et al. GENOME BIOLOGY
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationPublish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn More