ICARUS v3, a massively scalable web server for single-cell RNA-seq analysis of millions of cells

A Jiang, RG Snell, K Lehnert - Bioinformatics, 2024 - academic.oup.com
Motivation In recent years, improvements in throughput of single cell RNA-seq have resulted
in a significant increase in the number of cells profiled. The generation of single cell RNA …

ICARUS, an interactive web server for single cell RNA-seq analysis

A Jiang, K Lehnert, L You, RG Snell - Nucleic acids research, 2022 - academic.oup.com
Here we present ICARUS, a web server to enable users without experience in R to
undertake single cell RNA-seq analysis. The focal point of ICARUS is its intuitive tutorial …

alona: a web server for single-cell RNA-seq analysis

O Franzén, JLM Björkegren - Bioinformatics, 2020 - academic.oup.com
Single-cell RNA sequencing (scRNA-seq) is a technology to measure gene expression in
single cells. It has enabled discovery of new cell types and established cell type atlases of …

Geometric sketching compactly summarizes the single-cell transcriptomic landscape

B Hie, H Cho, B DeMeo, B Bryson, B Berger - Cell systems, 2019 - cell.com
Large-scale single-cell RNA sequencing (scRNA-seq) studies that profile hundreds of
thousands of cells are becoming increasingly common, overwhelming existing analysis …

Delineation of complex gene expression patterns in single cell RNA-seq data with ICARUS v2. 0

A Jiang, L You, RG Snell… - NAR Genomics and …, 2023 - academic.oup.com
Complex biological traits and disease often involve patterns of gene expression that can be
characterised and examined. Here we present ICARUS v2. 0, an update to our single cell …

SCANNER: A Web Resource for Annotation, Visualization and Sharing of Single Cell RNA-seq Data

G Cai, F Xiao - bioRxiv, 2020 - biorxiv.org
Motivation In recent years, efficient single cell RNA sequencing (scRNA-seq) methods have
been developed, enabling the transcriptome profiling of each single cell massively in …

Single Cell Explorer, collaboration-driven tools to leverage large-scale single cell RNA-seq data

D Feng, CE Whitehurst, D Shan, JD Hill, YG Yue - BMC genomics, 2019 - Springer
Background Single cell transcriptome sequencing has become an increasingly valuable
technology for dissecting complex biology at a resolution impossible with bulk sequencing …

ASAP: a web-based platform for the analysis and interactive visualization of single-cell RNA-seq data

V Gardeux, FPA David, A Shajkofci, PC Schwalie… - …, 2017 - academic.oup.com
Motivation Single-cell RNA-sequencing (scRNA-seq) allows whole transcriptome profiling of
thousands of individual cells, enabling the molecular exploration of tissues at the cellular …

A flexible cross-platform single-cell data processing pipeline

K Battenberg, ST Kelly, RA Ras… - Nature …, 2022 - nature.com
Single-cell RNA-sequencing analysis to quantify the RNA molecules in individual cells has
become popular, as it can obtain a large amount of information from each experiment. We …

[HTML][HTML] An accessible, interactive GenePattern Notebook for analysis and exploration of single-cell transcriptomic data

CK Mah, AT Wenzel, EF Juarez, T Tabor… - …, 2019 - pmc.ncbi.nlm.nih.gov
Single-cell RNA sequencing (scRNA-seq) has emerged as a popular method to profile gene
expression at the resolution of individual cells. While there have been methods and software …