Single-cell chromatin state analysis with Signac
The recent development of experimental methods for measuring chromatin state at single-
cell resolution has created a need for computational tools capable of analyzing these …
cell resolution has created a need for computational tools capable of analyzing these …
Multimodal single-cell chromatin analysis with Signac
The recent development of experimental methods for measuring chromatin state at single-
cell resolution has created a need for computational tools capable of analyzing these …
cell resolution has created a need for computational tools capable of analyzing these …
ChromHMM: automating chromatin-state discovery and characterization
Chromatin-state annotation using combinations of chromatin modification patterns has
emerged as a powerful approach for discovering regulatory regions and their cell type …
emerged as a powerful approach for discovering regulatory regions and their cell type …
Single-cell joint detection of chromatin occupancy and transcriptome enables higher-dimensional epigenomic reconstructions
H Xiong, Y Luo, Q Wang, X Yu, A He - Nature Methods, 2021 - nature.com
Deciphering mechanisms in cell-fate decisions requires single-cell holistic reconstructions of
multidimensional epigenomic states in transcriptional regulation. Here we develop CoTECH …
multidimensional epigenomic states in transcriptional regulation. Here we develop CoTECH …
Profiling chromatin states using single-cell itChIP-seq
Single-cell measurement of chromatin states, including histone modifications and non-
histone protein binding, remains challenging. Here, we present a low-cost, efficient …
histone protein binding, remains challenging. Here, we present a low-cost, efficient …
Characterizing cellular heterogeneity in chromatin state with scCUT&Tag-pro
Technologies that profile chromatin modifications at single-cell resolution offer enormous
promise for functional genomic characterization, but the sparsity of the measurements and …
promise for functional genomic characterization, but the sparsity of the measurements and …
Single-cell ChIP-seq reveals cell subpopulations defined by chromatin state
Chromatin profiling provides a versatile means to investigate functional genomic elements
and their regulation. However, current methods yield ensemble profiles that are insensitive …
and their regulation. However, current methods yield ensemble profiles that are insensitive …
High‐resolution chromatin profiling using CUT&RUN
SJ Hainer, TG Fazzio - Current protocols in molecular biology, 2019 - Wiley Online Library
Determining the genomic location of DNA‐binding proteins is essential to understanding
their function. Cleavage Under Targets and Release Using Nuclease (CUT&RUN) is a …
their function. Cleavage Under Targets and Release Using Nuclease (CUT&RUN) is a …
Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells
EP Mimitou, CA Lareau, KY Chen… - Nature …, 2021 - nature.com
Recent technological advances have enabled massively parallel chromatin profiling with
scATAC-seq (single-cell assay for transposase accessible chromatin by sequencing). Here …
scATAC-seq (single-cell assay for transposase accessible chromatin by sequencing). Here …
epiAneufinder identifies copy number alterations from single-cell ATAC-seq data
A Ramakrishnan, A Symeonidi, P Hanel… - Nature …, 2023 - nature.com
Single-cell open chromatin profiling via scATAC-seq has become a mainstream
measurement of open chromatin in single-cells. Here we present epiAneufinder, an …
measurement of open chromatin in single-cells. Here we present epiAneufinder, an …