Gene regulatory network inference in the era of single-cell multi-omics

P Badia-i-Mompel, L Wessels, S Müller-Dott… - Nature Reviews …, 2023 - nature.com
The interplay between chromatin, transcription factors and genes generates complex
regulatory circuits that can be represented as gene regulatory networks (GRNs). The study …

Metformin: update on mechanisms of action and repurposing potential

M Foretz, B Guigas, B Viollet - Nature Reviews Endocrinology, 2023 - nature.com
Currently, metformin is the first-line medication to treat type 2 diabetes mellitus (T2DM) in
most guidelines and is used daily by> 200 million patients. Surprisingly, the mechanisms …

Profiling the human intestinal environment under physiological conditions

D Shalon, RN Culver, JA Grembi, J Folz, PV Treit, H Shi… - Nature, 2023 - nature.com
The spatiotemporal structure of the human microbiome,, proteome and metabolome, reflects
and determines regional intestinal physiology and may have implications for disease. Yet …

Single-cell proteomics enabled by next-generation sequencing or mass spectrometry

HM Bennett, W Stephenson, CM Rose, S Darmanis - Nature Methods, 2023 - nature.com
In the last decade, single-cell RNA sequencing routinely performed on large numbers of
single cells has greatly advanced our understanding of the underlying heterogeneity of …

Dictionary learning for integrative, multimodal and scalable single-cell analysis

Y Hao, T Stuart, MH Kowalski, S Choudhary… - Nature …, 2024 - nature.com
Mapping single-cell sequencing profiles to comprehensive reference datasets provides a
powerful alternative to unsupervised analysis. However, most reference datasets are …

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 …

The emerging landscape of spatial profiling technologies

JR Moffitt, E Lundberg, H Heyn - Nature Reviews Genetics, 2022 - nature.com
Improved scale, multiplexing and resolution are establishing spatial nucleic acid and protein
profiling methods as a major pillar for cellular atlas building of complex samples, from …

[HTML][HTML] What is a cell type and how to define it?

H Zeng - Cell, 2022 - cell.com
Cell types are the basic functional units of an organism. Cell types exhibit diverse
phenotypic properties at multiple levels, making them challenging to define, categorize, and …

The pathogenesis of rheumatoid arthritis

S Alivernini, GS Firestein, IB McInnes - Immunity, 2022 - cell.com
Significant recent progress in understanding rheumatoid arthritis (RA) pathogenesis has led
to improved treatment and quality of life. The introduction of targeted-biologic and-synthetic …

Hallmarks of transcriptional intratumour heterogeneity across a thousand tumours

A Gavish, M Tyler, AC Greenwald, R Hoefflin, D Simkin… - Nature, 2023 - nature.com
Each tumour contains diverse cellular states that underlie intratumour heterogeneity (ITH), a
central challenge of cancer therapeutics. Dozens of recent studies have begun to describe …