Guidelines for bioinformatics of single-cell sequencing data analysis in Alzheimer's disease: review, recommendation, implementation and application
Alzheimer's disease (AD) is the most common form of dementia, characterized by
progressive cognitive impairment and neurodegeneration. Extensive clinical and genomic …
progressive cognitive impairment and neurodegeneration. Extensive clinical and genomic …
Scrublet: computational identification of cell doublets in single-cell transcriptomic data
Single-cell RNA-sequencing has become a widely used, powerful approach for studying cell
populations. However, these methods often generate multiplet artifacts, where two or more …
populations. However, these methods often generate multiplet artifacts, where two or more …
Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function
Understanding gene function and regulation in homeostasis and disease requires
knowledge of the cellular and tissue contexts in which genes are expressed. Here, we …
knowledge of the cellular and tissue contexts in which genes are expressed. Here, we …
Computational methods for single-cell RNA sequencing
Single-cell RNA sequencing (scRNA-seq) has provided a high-dimensional catalog of
millions of cells across species and diseases. These data have spurred the development of …
millions of cells across species and diseases. These data have spurred the development of …
Monocyte-driven atypical cytokine storm and aberrant neutrophil activation as key mediators of COVID-19 disease severity
L Vanderbeke, P Van Mol, Y Van Herck… - Nature …, 2021 - nature.com
Epidemiological and clinical reports indicate that SARS-CoV-2 virulence hinges upon the
triggering of an aberrant host immune response, more so than on direct virus-induced …
triggering of an aberrant host immune response, more so than on direct virus-induced …
Souporcell: robust clustering of single-cell RNA-seq data by genotype without reference genotypes
Methods to deconvolve single-cell RNA-sequencing (scRNA-seq) data are necessary for
samples containing a mixture of genotypes, whether they are natural or experimentally …
samples containing a mixture of genotypes, whether they are natural or experimentally …
The single-cell eQTLGen consortium
In recent years, functional genomics approaches combining genetic information with bulk
RNA-sequencing data have identified the downstream expression effects of disease …
RNA-sequencing data have identified the downstream expression effects of disease …
Hyaluronic acid–GPRC5C signalling promotes dormancy in haematopoietic stem cells
YW Zhang, J Mess, N Aizarani, P Mishra… - Nature cell …, 2022 - nature.com
Bone marrow haematopoietic stem cells (HSCs) are vital for lifelong maintenance of healthy
haematopoiesis. In inbred mice housed in gnotobiotic facilities, the top of the haematopoietic …
haematopoiesis. In inbred mice housed in gnotobiotic facilities, the top of the haematopoietic …
Multiplexed single-cell transcriptional response profiling to define cancer vulnerabilities and therapeutic mechanism of action
Assays to study cancer cell responses to pharmacologic or genetic perturbations are
typically restricted to using simple phenotypic readouts such as proliferation rate. Information …
typically restricted to using simple phenotypic readouts such as proliferation rate. Information …
propeller: testing for differences in cell type proportions in single cell data
Abstract Motivation Single cell RNA-Sequencing (scRNA-seq) has rapidly gained popularity
over the last few years for profiling the transcriptomes of thousands to millions of single cells …
over the last few years for profiling the transcriptomes of thousands to millions of single cells …