The technological landscape and applications of single-cell multi-omics
Single-cell multi-omics technologies and methods characterize cell states and activities by
simultaneously integrating various single-modality omics methods that profile the …
simultaneously integrating various single-modality omics methods that profile the …
Methods and applications for single-cell and spatial multi-omics
K Vandereyken, A Sifrim, B Thienpont… - Nature Reviews Genetics, 2023 - nature.com
The joint analysis of the genome, epigenome, transcriptome, proteome and/or metabolome
from single cells is transforming our understanding of cell biology in health and disease. In …
from single cells is transforming our understanding of cell biology in health and disease. In …
Dictionary learning for integrative, multimodal and scalable single-cell analysis
Mapping single-cell sequencing profiles to comprehensive reference datasets provides a
powerful alternative to unsupervised analysis. However, most reference datasets are …
powerful alternative to unsupervised analysis. However, most reference datasets are …
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 …
Multi-omics single-cell data integration and regulatory inference with graph-linked embedding
ZJ Cao, G Gao - Nature Biotechnology, 2022 - nature.com
Despite the emergence of experimental methods for simultaneous measurement of multiple
omics modalities in single cells, most single-cell datasets include only one modality. A major …
omics modalities in single cells, most single-cell datasets include only one modality. A major …
Characterizing cis-regulatory elements using single-cell epigenomics
Cell type-specific gene expression patterns and dynamics during development or in disease
are controlled by cis-regulatory elements (CREs), such as promoters and enhancers …
are controlled by cis-regulatory elements (CREs), such as promoters and enhancers …
[PDF][PDF] Integrated analysis of multimodal single-cell data
Y Hao, S Hao, E Andersen-Nissen, WM Mauck… - Cell, 2021 - cell.com
The simultaneous measurement of multiple modalities represents an exciting frontier for
single-cell genomics and necessitates computational methods that can define cellular states …
single-cell genomics and necessitates computational methods that can define cellular states …
Computational principles and challenges in single-cell data integration
The development of single-cell multimodal assays provides a powerful tool for investigating
multiple dimensions of cellular heterogeneity, enabling new insights into development …
multiple dimensions of cellular heterogeneity, enabling new insights into development …
Joint probabilistic modeling of single-cell multi-omic data with totalVI
The paired measurement of RNA and surface proteins in single cells with cellular indexing
of transcriptomes and epitopes by sequencing (CITE-seq) is a promising approach to …
of transcriptomes and epitopes by sequencing (CITE-seq) is a promising approach to …
Single-cell multiomics: technologies and data analysis methods
Advances in single-cell isolation and barcoding technologies offer unprecedented
opportunities to profile DNA, mRNA, and proteins at a single-cell resolution. Recently, bulk …
opportunities to profile DNA, mRNA, and proteins at a single-cell resolution. Recently, bulk …