Single-cell RNA sequencing to explore immune cell heterogeneity

E Papalexi, R Satija - Nature Reviews Immunology, 2018 - nature.com
Advances in single-cell RNA sequencing (scRNA-seq) have allowed for comprehensive
analysis of the immune system. In this Review, we briefly describe the available scRNA-seq …

From haematopoietic stem cells to complex differentiation landscapes

E Laurenti, B Göttgens - Nature, 2018 - nature.com
The development of mature blood cells from haematopoietic stem cells has long served as a
model for stem-cell research, with the haematopoietic differentiation tree being widely used …

A human cell atlas of fetal gene expression

J Cao, DR O'day, HA Pliner, PD Kingsley, M Deng… - Science, 2020 - science.org
INTRODUCTION A reference atlas of human cell types is a major goal for the field. Here, we
set out to generate single-cell atlases of both gene expression (this study) and chromatin …

Characterization of cell fate probabilities in single-cell data with Palantir

M Setty, V Kiseliovas, J Levine, A Gayoso… - Nature …, 2019 - nature.com
Single-cell RNA sequencing studies of differentiating systems have raised fundamental
questions regarding the discrete versus continuous nature of both differentiation and cell …

A comprehensive single cell transcriptional landscape of human hematopoietic progenitors

D Pellin, M Loperfido, C Baricordi, SL Wolock… - Nature …, 2019 - nature.com
Abstract Hematopoietic Stem/Progenitor cells (HSPCs) are endowed with the role of
maintaining a diverse pool of blood cells throughout the human life. Despite recent efforts …

Gene regulatory network inference from single-cell data using multivariate information measures

TE Chan, MPH Stumpf, AC Babtie - Cell systems, 2017 - cell.com
While single-cell gene expression experiments present new challenges for data processing,
the cell-to-cell variability observed also reveals statistical relationships that can be used by …

[HTML][HTML] Single-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell states

S Triana, D Vonficht, L Jopp-Saile, S Raffel, R Lutz… - Nature …, 2021 - nature.com
Single-cell genomics technology has transformed our understanding of complex cellular
systems. However, excessive cost and a lack of strategies for the purification of newly …

A comprehensive survey of regulatory network inference methods using single cell RNA sequencing data

H Nguyen, D Tran, B Tran, B Pehlivan… - Briefings in …, 2021 - academic.oup.com
Gene regulatory network is a complicated set of interactions between genetic materials,
which dictates how cells develop in living organisms and react to their surrounding …

CRISPR/Cas9 genome editing in human hematopoietic stem cells

RO Bak, DP Dever, MH Porteus - Nature protocols, 2018 - nature.com
Genome editing via homologous recombination (HR)(gene targeting) in human
hematopoietic stem cells (HSCs) has the power to reveal gene–function relationships and …

[HTML][HTML] Unraveling hematopoiesis through the lens of genomics

LA Liggett, VG Sankaran - Cell, 2020 - cell.com
Hematopoiesis has long served as a paradigm of stem cell biology and tissue homeostasis.
In the past decade, the genomics revolution has ushered in powerful new methods for …