Probabilistic cell-type assignment of single-cell RNA-seq for tumor microenvironment profiling
AW Zhang, C O'Flanagan, EA Chavez, JLP Lim… - Nature …, 2019 - nature.com
Single-cell RNA sequencing has enabled the decomposition of complex tissues into
functionally distinct cell types. Often, investigators wish to assign cells to cell types through …
functionally distinct cell types. Often, investigators wish to assign cells to cell types through …
[HTML][HTML] Seamless integration of image and molecular analysis for spatial transcriptomics workflows
Background Recent advancements in in situ gene expression technologies constitute a new
and rapidly evolving field of transcriptomics. With the recent launch of the 10x Genomics …
and rapidly evolving field of transcriptomics. With the recent launch of the 10x Genomics …
[HTML][HTML] Recent developments in application of single-cell RNA sequencing in the tumour immune microenvironment and cancer therapy
The advent of single-cell RNA sequencing (scRNA-seq) has provided insight into the tumour
immune microenvironment (TIME). This review focuses on the application of scRNA-seq in …
immune microenvironment (TIME). This review focuses on the application of scRNA-seq in …
[HTML][HTML] Assessment of computational methods for the analysis of single-cell ATAC-seq data
Background Recent innovations in single-cell Assay for Transposase Accessible Chromatin
using sequencing (scATAC-seq) enable profiling of the epigenetic landscape of thousands …
using sequencing (scATAC-seq) enable profiling of the epigenetic landscape of thousands …
[HTML][HTML] Genetic mapping of cell type specificity for complex traits
K Watanabe, M Umićević Mirkov, CA de Leeuw… - Nature …, 2019 - nature.com
Single-cell RNA sequencing (scRNA-seq) data allows to create cell type specific
transcriptome profiles. Such profiles can be aligned with genome-wide association studies …
transcriptome profiles. Such profiles can be aligned with genome-wide association studies …
Biological sequence classification: A review on data and general methods
C Ao, S Jiao, Y Wang, L Yu, Q Zou - Research, 2022 - spj.science.org
With the rapid development of biotechnology, the number of biological sequences has
grown exponentially. The continuous expansion of biological sequence data promotes the …
grown exponentially. The continuous expansion of biological sequence data promotes the …
[HTML][HTML] Collagen-producing lung cell atlas identifies multiple subsets with distinct localization and relevance to fibrosis
Collagen-producing cells maintain the complex architecture of the lung and drive pathologic
scarring in pulmonary fibrosis. Here we perform single-cell RNA-sequencing to identify all …
scarring in pulmonary fibrosis. Here we perform single-cell RNA-sequencing to identify all …
Significance analysis for clustering with single-cell RNA-sequencing data
Unsupervised clustering of single-cell RNA-sequencing data enables the identification of
distinct cell populations. However, the most widely used clustering algorithms are heuristic …
distinct cell populations. However, the most widely used clustering algorithms are heuristic …
[HTML][HTML] Integrative analyses of single-cell transcriptome and regulome using MAESTRO
Abstract We present Model-based AnalysEs of Transcriptome and RegulOme (MAESTRO),
a comprehensive open-source computational workflow (http://github. com/liulab …
a comprehensive open-source computational workflow (http://github. com/liulab …
Advancing CAR T cell therapy through the use of multidimensional omics data
Despite the notable success of chimeric antigen receptor (CAR) T cell therapies in the
treatment of certain haematological malignancies, challenges remain in optimizing CAR …
treatment of certain haematological malignancies, challenges remain in optimizing CAR …