Best practices for single-cell analysis across modalities

L Heumos, AC Schaar, C Lance, A Litinetskaya… - Nature Reviews …, 2023 - nature.com
Recent advances in single-cell technologies have enabled high-throughput molecular
profiling of cells across modalities and locations. Single-cell transcriptomics data can now …

Single-cell and spatial transcriptomics: deciphering brain complexity in health and disease

M Piwecka, N Rajewsky, A Rybak-Wolf - Nature Reviews Neurology, 2023 - nature.com
In the past decade, single-cell technologies have proliferated and improved from their
technically challenging beginnings to become common laboratory methods capable of …

An integrated cell atlas of the lung in health and disease

L Sikkema, C Ramírez-Suástegui, DC Strobl… - Nature medicine, 2023 - nature.com
Single-cell technologies have transformed our understanding of human tissues. Yet, studies
typically capture only a limited number of donors and disagree on cell type definitions …

A body–brain circuit that regulates body inflammatory responses

H **, M Li, E Jeong, F Castro-Martinez, CS Zuker - Nature, 2024 - nature.com
The body–brain axis is emerging as a principal conductor of organismal physiology. It
senses and controls organ function,, metabolism and nutritional state,–. Here we show that a …

Pan-cancer T cell atlas links a cellular stress response state to immunotherapy resistance

Y Chu, E Dai, Y Li, G Han, G Pei, DR Ingram… - Nature medicine, 2023 - nature.com
Tumor-infiltrating T cells offer a promising avenue for cancer treatment, yet their states
remain to be fully characterized. Here we present a single-cell atlas of T cells from 308,048 …

hdWGCNA identifies co-expression networks in high-dimensional transcriptomics data

S Morabito, F Reese, N Rahimzadeh, E Miyoshi… - Cell reports …, 2023 - cell.com
Biological systems are immensely complex, organized into a multi-scale hierarchy of
functional units based on tightly regulated interactions between distinct molecules, cells …

[HTML][HTML] Spatial epigenome–transcriptome co-profiling of mammalian tissues

D Zhang, Y Deng, P Kukanja, E Agirre, M Bartosovic… - Nature, 2023 - nature.com
Emerging spatial technologies, including spatial transcriptomics and spatial epigenomics,
are becoming powerful tools for profiling of cellular states in the tissue context,,,–. However …

Glioblastoma remodelling of human neural circuits decreases survival

S Krishna, A Choudhury, MB Keough, K Seo, L Ni… - Nature, 2023 - nature.com
Gliomas synaptically integrate into neural circuits,. Previous research has demonstrated
bidirectional interactions between neurons and glioma cells, with neuronal activity driving …

ApoE isoform–and microbiota-dependent progression of neurodegeneration in a mouse model of tauopathy

D Seo, D O'Donnell, N Jain, JD Ulrich, J Herz, Y Li… - Science, 2023 - science.org
Tau-mediated neurodegeneration is a hallmark of Alzheimer's disease. Primary tauopathies
are characterized by pathological tau accumulation and neuronal and synaptic loss …