Applications of single-cell RNA sequencing in drug discovery and development

B Van de Sande, JS Lee, E Mutasa-Gottgens… - Nature Reviews Drug …, 2023‏ - nature.com
Single-cell technologies, particularly single-cell RNA sequencing (scRNA-seq) methods,
together with associated computational tools and the growing availability of public data …

Orchestrating single-cell analysis with Bioconductor

RA Amezquita, ATL Lun, E Becht, VJ Carey… - Nature …, 2020‏ - nature.com
Recent technological advancements have enabled the profiling of a large number of
genome-wide features in individual cells. However, single-cell data present unique …

Lineage plasticity in prostate cancer depends on JAK/STAT inflammatory signaling

JM Chan, S Zaidi, JR Love, JL Zhao, M Setty… - Science, 2022‏ - science.org
Drug resistance in cancer is often linked to changes in tumor cell state or lineage, but the
molecular mechanisms driving this plasticity remain unclear. Using murine organoid and …

Neutrophils and emergency granulopoiesis drive immune suppression and an extreme response endotype during sepsis

AJ Kwok, A Allcock, RC Ferreira, E Cano-Gamez… - Nature …, 2023‏ - nature.com
Sepsis arises from diverse and incompletely understood dysregulated host response
processes following infection that leads to life-threatening organ dysfunction. Here we …

Single-cell chromatin state analysis with Signac

T Stuart, A Srivastava, S Madad, CA Lareau, R Satija - Nature methods, 2021‏ - nature.com
The recent development of experimental methods for measuring chromatin state at single-
cell resolution has created a need for computational tools capable of analyzing these …

A single-cell atlas of human and mouse white adipose tissue

MP Emont, C Jacobs, AL Essene, D Pant, D Tenen… - Nature, 2022‏ - nature.com
White adipose tissue, once regarded as morphologically and functionally bland, is now
recognized to be dynamic, plastic and heterogenous, and is involved in a wide array of …

Functional, metabolic and transcriptional maturation of human pancreatic islets derived from stem cells

D Balboa, T Barsby, V Lithovius, J Saarimäki-Vire… - Nature …, 2022‏ - nature.com
Transplantation of pancreatic islet cells derived from human pluripotent stem cells is a
promising treatment for diabetes. Despite progress in the generation of stem-cell-derived …

A single-cell and spatially resolved atlas of human breast cancers

SZ Wu, G Al-Eryani, DL Roden, S Junankar, K Harvey… - Nature …, 2021‏ - nature.com
Breast cancers are complex cellular ecosystems where heterotypic interactions play central
roles in disease progression and response to therapy. However, our knowledge of their …

Comparative cellular analysis of motor cortex in human, marmoset and mouse

TE Bakken, NL Jorstad, Q Hu, BB Lake, W Tian… - Nature, 2021‏ - nature.com
The primary motor cortex (M1) is essential for voluntary fine-motor control and is functionally
conserved across mammals. Here, using high-throughput transcriptomic and epigenomic …

Spatially organized multicellular immune hubs in human colorectal cancer

K Pelka, M Hofree, JH Chen, S Sarkizova, JD Pirl… - Cell, 2021‏ - cell.com
Immune responses to cancer are highly variable, with mismatch repair-deficient (MMRd)
tumors exhibiting more anti-tumor immunity than mismatch repair-proficient (MMRp) tumors …