scGHOST: Identifying single-cell 3D genome subcompartments
Abstract Single-cell Hi-C (scHi-C) technologies allow for probing of genome-wide cell-to-cell
variability in three-dimensional (3D) genome organization from individual cells …
variability in three-dimensional (3D) genome organization from individual cells …
The 3D genome structure of single cells
The spatial organization of the genome in the cell nucleus is pivotal to cell function.
However, how the 3D genome organization and its dynamics influence cellular phenotypes …
However, how the 3D genome organization and its dynamics influence cellular phenotypes …
Ultrafast and interpretable single-cell 3D genome analysis with Fast-Higashi
Summary Single-cell Hi-C (scHi-C) technologies can probe three-dimensional (3D) genome
structures in individual cells. However, existing scHi-C analysis methods are hindered by the …
structures in individual cells. However, existing scHi-C analysis methods are hindered by the …
Revealing Hi-C subcompartments by imputing inter-chromosomal chromatin interactions
Higher-order genome organization and its variation in different cellular conditions remain
poorly understood. Recent high-coverage genome-wide chromatin interaction mapping …
poorly understood. Recent high-coverage genome-wide chromatin interaction mapping …
Multiscale and integrative single-cell Hi-C analysis with Higashi
Abstract Single-cell Hi-C (scHi-C) can identify cell-to-cell variability of three-dimensional
(3D) chromatin organization, but the sparseness of measured interactions poses an analysis …
(3D) chromatin organization, but the sparseness of measured interactions poses an analysis …
Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data
HJ Kim, GG Yardımcı, G Bonora… - PLoS computational …, 2020 - journals.plos.org
Single-cell Hi-C (scHi-C) interrogates genome-wide chromatin interaction in individual cells,
allowing us to gain insights into 3D genome organization. However, the extremely sparse …
allowing us to gain insights into 3D genome organization. However, the extremely sparse …
Robust single-cell Hi-C clustering by convolution-and random-walk–based imputation
Three-dimensional genome structure plays a pivotal role in gene regulation and cellular
function. Single-cell analysis of genome architecture has been achieved using imaging and …
function. Single-cell analysis of genome architecture has been achieved using imaging and …
Sci-Hi-C: a single-cell Hi-C method for mapping 3D genome organization in large number of single cells
The highly dynamic nature of chromosome conformation and three-dimensional (3D)
genome organization leads to cell-to-cell variability in chromatin interactions within a cell …
genome organization leads to cell-to-cell variability in chromatin interactions within a cell …
Deep generative modeling and clustering of single cell Hi-C data
Deciphering 3D genome conformation is important for understanding gene regulation and
cellular function at a spatial level. The recent advances of single cell Hi-C technologies have …
cellular function at a spatial level. The recent advances of single cell Hi-C technologies have …
Reconstruct high-resolution 3D genome structures for diverse cell-types using FLAMINGO
High-resolution reconstruction of spatial chromosome organizations from chromatin contact
maps is highly demanded, but is hindered by extensive pairwise constraints, substantial …
maps is highly demanded, but is hindered by extensive pairwise constraints, substantial …