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 …

The technological landscape and applications of single-cell multi-omics

A Baysoy, Z Bai, R Satija, R Fan - Nature Reviews Molecular Cell …, 2023 - nature.com
Single-cell multi-omics technologies and methods characterize cell states and activities by
simultaneously integrating various single-modality omics methods that profile the …

Dynamics and specificities of T cells in cancer immunotherapy

G Oliveira, CJ Wu - Nature Reviews Cancer, 2023 - nature.com
Recent advances in cancer immunotherapy—ranging from immune-checkpoint blockade
therapy to adoptive cellular therapy and vaccines—have revolutionized cancer treatment …

Can we predict T cell specificity with digital biology and machine learning?

D Hudson, RA Fernandes, M Basham, G Ogg… - Nature Reviews …, 2023 - nature.com
Recent advances in machine learning and experimental biology have offered breakthrough
solutions to problems such as protein structure prediction that were long thought to be …

Decoding the tumor microenvironment with spatial technologies

LA Walsh, DF Quail - Nature Immunology, 2023 - nature.com
Visualization of the cellular heterogeneity and spatial architecture of the tumor
microenvironment (TME) is becoming increasingly important to understand mechanisms of …

Slide-tags enables single-nucleus barcoding for multimodal spatial genomics

AJC Russell, JA Weir, NM Nadaf, M Shabet, V Kumar… - Nature, 2024 - nature.com
Recent technological innovations have enabled the high-throughput quantification of gene
expression and epigenetic regulation within individual cells, transforming our understanding …

Spatial transcriptomics of B cell and T cell receptors reveals lymphocyte clonal dynamics

C Engblom, K Thrane, Q Lin, A Andersson, H Toosi… - Science, 2023 - science.org
The spatial distribution of lymphocyte clones within tissues is critical to their development,
selection, and expansion. We have developed spatial transcriptomics of variable, diversity …

[HTML][HTML] Spatially resolved transcriptomics: a comprehensive review of their technological advances, applications, and challenges

M Cheng, Y Jiang, J Xu, AFA Mentis, S Wang… - Journal of Genetics and …, 2023 - Elsevier
The ability to explore life kingdoms is largely driven by innovations and breakthroughs in
technology, from the invention of the microscope 350 years ago to the recent emergence of …

B cells in the tumor microenvironment: Multi-faceted organizers, regulators, and effectors of anti-tumor immunity

CM Laumont, BH Nelson - Cancer Cell, 2023 - cell.com
Our understanding of tumor-infiltrating lymphocytes (TILs) is rapidly expanding beyond T cell-
centric perspectives to include B cells and plasma cells, collectively referred to as TIL-Bs. In …

Spatial transcriptomics: technical aspects of recent developments and their applications in neuroscience and cancer research

HE Park, SH Jo, RH Lee, CP Macks, T Ku… - Advanced …, 2023 - Wiley Online Library
Spatial transcriptomics is a newly emerging field that enables high‐throughput investigation
of the spatial localization of transcripts and related analyses in various applications for …