[HTML][HTML] 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 …
[HTML][HTML] 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 …
[HTML][HTML] Multi-omics integration in the age of million single-cell data
An explosion in single-cell technologies has revealed a previously underappreciated
heterogeneity of cell types and novel cell-state associations with sex, disease, development …
heterogeneity of cell types and novel cell-state associations with sex, disease, development …
[HTML][HTML] scJoint integrates atlas-scale single-cell RNA-seq and ATAC-seq data with transfer learning
Single-cell multiomics data continues to grow at an unprecedented pace. Although several
methods have demonstrated promising results in integrating several data modalities from …
methods have demonstrated promising results in integrating several data modalities from …
Computational approaches and challenges in spatial transcriptomics
S Fang, B Chen, Y Zhang, H Sun, L Liu… - Genomics …, 2023 - academic.oup.com
The development of spatial transcriptomics (ST) technologies has transformed genetic
research from a single-cell data level to a two-dimensional spatial coordinate system and …
research from a single-cell data level to a two-dimensional spatial coordinate system and …
[HTML][HTML] Integration of spatial and single-cell data across modalities with weakly linked features
Although single-cell and spatial sequencing methods enable simultaneous measurement of
more than one biological modality, no technology can capture all modalities within the same …
more than one biological modality, no technology can capture all modalities within the same …
[HTML][HTML] The human tumor atlas network: charting tumor transitions across space and time at single-cell resolution
O Rozenblatt-Rosen, A Regev, P Oberdoerffer, T Nawy… - Cell, 2020 - cell.com
Crucial transitions in cancer—including tumor initiation, local expansion, metastasis, and
therapeutic resistance—involve complex interactions between cells within the dynamic …
therapeutic resistance—involve complex interactions between cells within the dynamic …
Integrative methods and practical challenges for single-cell multi-omics
Fast-developing single-cell multimodal omics (scMulti-omics) technologies enable the
measurement of multiple modalities, such as DNA methylation, chromatin accessibility, RNA …
measurement of multiple modalities, such as DNA methylation, chromatin accessibility, RNA …
[HTML][HTML] UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization
AR Kriebel, JD Welch - Nature communications, 2022 - nature.com
Single-cell genomic technologies provide an unprecedented opportunity to define molecular
cell types in a data-driven fashion, but present unique data integration challenges. Many …
cell types in a data-driven fashion, but present unique data integration challenges. Many …
SCOT: single-cell multi-omics alignment with optimal transport
Recent advances in sequencing technologies have allowed us to capture various aspects of
the genome at single-cell resolution. However, with the exception of a few of co-assaying …
the genome at single-cell resolution. However, with the exception of a few of co-assaying …