CellCover Defines Conserved Cell Types and Temporal Progression in scRNA-seq Data across Mammalian Neocortical Development

L Ji, A Wang, S Sonthalia, DQ Naiman, L Younes… - bioRxiv, 2023 - biorxiv.org
Accurate identification of cell classes across the tissues of living organisms is central in the
analysis of growing atlases of single-cell RNA sequencing (scRNA-seq) data across …

[PDF][PDF] CellCover Captures Neural Stem Cell Progression in Mammalian Neocortical Development

L Ji, A Wang, S Sonthalia, DQ Naiman, L Younes… - bioRxiv, 2024 - biorxiv.org
Definition of cell classes across the tissues of living organisms is central in the analysis of
growing atlases of singlecell RNA sequencing (scRNA-seq) data across biomedicine …

scQuery: a web server for comparative analysis of single-cell RNA-seq data

A Alavi, M Ruffalo, A Parvangada, Z Huang… - bioRxiv, 2018 - biorxiv.org
Summary Single cell RNA-Seq (scRNA-seq) studies often profile upward of thousands of
cells in heterogeneous environments. Current methods for characterizing cells perform …

ShinyCortex: exploring single-cell transcriptome data from the developing human cortex

J Kageyama, D Wollny, B Treutlein… - Frontiers in …, 2018 - frontiersin.org
Single-cell mRNA sequencing (scRNA-seq) is a powerful method to identify and classify cell
types and reconstruct differentiation trajectories within complex tissues, such as the …

A tissue centric atlas of cell type transcriptome enrichment signatures

P Dusart, S Öling, E Struck, M Norreen-Thorsen… - bioRxiv, 2023 - biorxiv.org
Genes with cell type specific expression typically encode for proteins that have cell type
specific functions. Single cell RNAseq (scRNAseq) has facilitated the identification of such …

Neuron types in the developing mouse brain are divided into partially matching epigenomic and transcriptomic classes

S Kilpinen, H Heliölä, K Achim - bioRxiv, 2022 - biorxiv.org
In recent single-cell-omics studies, both the differential activity of transcription factors
regulating cell fate determination and differential genome activation have been tested for …

[HTML][HTML] Simultaneous brain cell type and lineage determined by scRNA-seq reveals stereotyped cortical development

DJ Anderson, FM Pauler, A McKenna, J Shendure… - Cell systems, 2022 - cell.com
Mutations are acquired frequently, such that each cell's genome inscribes its history of cell
divisions. Common genomic alterations involve loss of heterozygosity (LOH). LOH …

Coexpression uncovers a unified single-cell transcriptomic landscape

B Hie, H Cho, B Bryson, B Berger - bioRxiv, 2019 - biorxiv.org
Researchers stand to gain insight into complex biological systems by assembling multiple
single-cell RNA-sequencing (scRNA-seq) studies to reveal a panoramic view of overarching …

A web server for comparative analysis of single-cell RNA-seq data

A Alavi, M Ruffalo, A Parvangada, Z Huang… - Nature …, 2018 - nature.com
Abstract Single cell RNA-Seq (scRNA-seq) studies profile thousands of cells in
heterogeneous environments. Current methods for characterizing cells perform …

ClusterMap: comparing analyses across multiple single cell RNA-seq profiles

X Gao, D Hu, M Gogol, H Li - bioRxiv, 2018 - biorxiv.org
Single cell RNA-Seq facilitates the characterization of cell type heterogeneity and
developmental processes. Further study of single cell profiles across different conditions …