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Continuous chromatin state feature annotation of the human epigenome

https://doi.org/10.1101/473017
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1016/j.cell.2010.09.009openalex-snapshot
Systematic Protein Location Mapping Reveals Five Principal Chromatin Types in Drosophila Cells
inferredcites →https://doi.org/10.1016/j.ygeno.2013.03.009openalex-snapshot
A tiered hidden Markov model characterizes multi-scale chromatin states
inferredcites →https://doi.org/10.1038/nature09906openalex-snapshot
Mapping and analysis of chromatin state dynamics in nine human cell types
inferredcites →https://doi.org/10.1038/nature14248openalex-snapshot
Integrative analysis of 111 reference human epigenomes
inferredcites →https://doi.org/10.1038/ncomms10528openalex-snapshot
Probabilistic modelling of chromatin code landscape reveals functional diversity of enhancer-like chromatin states
inferredcites →https://doi.org/10.1038/nmeth.1906openalex-snapshot
ChromHMM: automating chromatin-state discovery and characterization
inferredcites →https://doi.org/10.1038/nmeth.1937openalex-snapshot
Unsupervised pattern discovery in human chromatin structure through genomic segmentation
inferredcites →https://doi.org/10.1038/s41467-018-03635-9openalex-snapshot
PREDICTD PaRallel Epigenomics Data Imputation with Cloud-based Tensor Decomposition
inferredcites →https://doi.org/10.1080/14786440109462720openalex-snapshot
LIII. On lines and planes of closest fit to systems of points in space
inferredcites →https://doi.org/10.1093/acprof:oso/9780199641178.001.0001openalex-snapshot
Time Series Analysis by State Space Methods
inferredcites →https://doi.org/10.1093/bioinformatics/btm096openalex-snapshot
Unsupervised segmentation of continuous genomic data
inferredcites →https://doi.org/10.1093/bioinformatics/btv117openalex-snapshot
hiHMM: Bayesian non-parametric joint inference of chromatin state maps
inferredcites →https://doi.org/10.1093/nar/gks1284openalex-snapshot
Integrative annotation of chromatin elements from ENCODE data
inferredcites →https://doi.org/10.1093/nar/gkw278openalex-snapshot
Jointly characterizing epigenetic dynamics across multiple human cell types
inferredcites →https://doi.org/10.1093/nar/gkx659openalex-snapshot
Accurate and reproducible functional maps in 127 human cell types via 2D genome segmentation
inferredcites →https://doi.org/10.1101/086025openalex-snapshot
A unified encyclopedia of human functional DNA elements through fully automated annotation of 164 human cell types
inferredcites →https://doi.org/10.1101/gr.184341.114openalex-snapshot
Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell-type-specific expression
inferredcites →https://doi.org/10.1186/1471-2105-14-s2-s4openalex-snapshot
An enhanced computational platform for investigating the roles of regulatory RNA and for identifying functional RNA motifs
inferredcites →https://doi.org/10.1186/1471-2105-14-s5-s4openalex-snapshot
Discovering and mapping chromatin states using a tree hidden Markov model
inferredcites →https://doi.org/10.1186/s13059-015-0708-zopenalex-snapshot
Chromatin segmentation based on a probabilistic model for read counts explains a large portion of the epigenome
inferredcites →https://doi.org/10.1186/s13059-020-01977-6openalex-snapshot
Avocado: a multi-scale deep tensor factorization method learns a latent representation of the human epigenome
inferredcites →https://doi.org/10.12688/f1000research.13535.1openalex-snapshot
StateHub-StatePaintR: rapid and reproducible chromatin state evaluation for custom genome annotation
inferredcites →https://doi.org/10.4324/9780203936399openalex-snapshot
Handbook of Latent Semantic Analysis
inferredcites →https://doi.org/10.48550/arxiv.1201.0490openalex-snapshot
Scikit-learn: Machine Learning in Python
inferredcites →https://doi.org/10.48550/arxiv.1711.00137openalex-snapshot
Pomegranate: fast and flexible probabilistic modeling in python

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1093/bioinformatics/btab742openalex-snapshot
SigTools: exploratory visualization for genomic signals
inferred← citeshttps://doi.org/10.1109/tcbb.2021.3084147openalex-snapshot
Latent Representation of the Human Pan-Celltype Epigenome Through a Deep Recurrent Neural Network
inferred← citeshttps://doi.org/10.1371/journal.pcbi.1009423openalex-snapshot
Segmentation and genome annotation algorithms for identifying chromatin state and other genomic patterns
inferred← citeshttps://doi.org/10.46299/isg.2024.1.20openalex-snapshot
Proceedings of the XX International Scientific and Practical Conference
inferred← citeshttps://doi.org/10.46299/isg.p.2024.1.19openalex-snapshot
CREATIVE BUSINESS MANAGEMENT AND IMPLEMENTATION OF NEW IDEAS
inferred← citeshttps://doi.org/10.46299/isg.p.2024.1.20openalex-snapshot
TRENDS IN THE DEVELOPMENT OF QUALITY TRAINING OF FUTURE SPECIALISTS
inferred← citeshttps://doi.org/10.46299/isg.p.2024.1.23openalex-snapshot
WORLD WAYS AND METHODS OF IMPROVING OUTDATED THEORIES AND TRENDS
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