-
Article
Multipass high-dimensional flow cytometry
Barcoding cells with microparticles that emit near-infrared laser light enables the use of flow cytometry to track the dynamics of single cells by using more markers and fewer colours.
-
Article
Open AccessCRUSTY: a versatile web platform for the rapid analysis and visualization of high-dimensional flow cytometry data
Flow cytometry (FCM) can investigate dozens of parameters from millions of cells and hundreds of specimens in a short time and at a reasonable cost, but the amount of data that is generated is considerable. Co...
-
Article
Open AccessPhenotypic diversity of T cells in human primary and metastatic brain tumors revealed by multiomic interrogation
The immune-specialized environment of the healthy brain is tightly regulated to prevent excessive neuroinflammation. However, after cancer development, a tissue-specific conflict between brain-preserving immun...
-
Protocol
High-Dimensional Single-Cell Profiling of Tumor-Infiltrating CD4+ Regulatory T Cells
CD4+ T regulatory cells (Tregs) are a specialized subset of T lymphocytes, which promote immune homeostasis and tumor immunosuppression by restricting effector T cell immune responses. The characterization of con...
-
Article
Open AccessAuthor Correction: GZMKhigh CD8+ T effector memory cells are associated with CD15high neutrophil abundance in non-metastatic colorectal tumors and predict poor clinical outcome
-
Article
Open AccessGZMKhigh CD8+ T effector memory cells are associated with CD15high neutrophil abundance in non-metastatic colorectal tumors and predict poor clinical outcome
CD8+ T cells are a major prognostic determinant in solid tumors, including colorectal cancer (CRC). However, understanding how the interplay between different immune cells impacts on clinical outcome is still in ...
-
Article
‘Stem-like’ precursors are the fount to sustain persistent CD8+ T cell responses
Virus-specific CD8+ T cells that differentiate in the context of resolved versus persisting infections exhibit divergent phenotypic and functional characteristics, which suggests that their differentiation trajec...
-
Article
Open AccessAuthor Correction: Single-cell profiling defines the prognostic benefit of CD39high tissue resident memory CD8+ T cells in luminal-like breast cancer
-
Article
Open AccessSingle-cell profiling defines the prognostic benefit of CD39high tissue resident memory CD8+ T cells in luminal-like breast cancer
Luminal-like breast cancer (BC) constitutes the majority of BC subtypes, but, differently from highly aggressive triple negative BC, is poorly infiltrated by the immune system. The quality of the immune infilt...
-
Article
Aggressive early-stage lung adenocarcinoma is characterized by epithelial cell plasticity with acquirement of stem-like traits and immune evasion phenotype
Lung adenocarcinoma (LUAD) is the main non-small-cell lung cancer diagnosed in ~40–50% of all lung cancer cases. Despite the improvements in early detection and personalized medicine, even a sizable fraction o...
-
Article
Clonally expanded EOMES+ Tr1-like cells in primary and metastatic tumors are associated with disease progression
Regulatory T (Treg) cells are a barrier for tumor immunity and a target for immunotherapy. Using single-cell transcriptomics, we found that CD4+ T cells infiltrating primary and metastatic colorectal cancer and n...
-
Article
Open AccessCirculating mucosal-associated invariant T cells identify patients responding to anti-PD-1 therapy
Immune checkpoint inhibitors are used for treating patients with metastatic melanoma. Since the response to treatment is variable, biomarkers are urgently needed to identify patients who may benefit from such ...
-
Article
A fresh look at the T helper subset dogma
Single-cell-sequencing techniques enable the decades-old T helper subset dogma to be re-examined in an unsupervised manner, bringing nuance to the definition of known subsets while simultaneously identifying i...
-
Article
Two subsets of stem-like CD8+ memory T cell progenitors with distinct fate commitments in humans
T cell memory relies on the generation of antigen-specific progenitors with stem-like properties. However, the identity of these progenitors has remained unclear, precluding a full understanding of the differe...
-
Article
A distal enhancer at risk locus 11q13.5 promotes suppression of colitis by Treg cells
Genetic variations underlying susceptibility to complex autoimmune and allergic diseases are concentrated within noncoding regulatory elements termed enhancers1. The functions of a large majority of disease-assoc...
-
Article
Open AccessImmunological history governs human stem cell memory CD4 heterogeneity via the Wnt signaling pathway
The diversity of the naïve T cell repertoire drives the replenishment potential and capacity of memory T cells to respond to immune challenges. Attrition of the immune system is associated with an increased pr...
-
Article
Open AccessGlobal chromatin conformation differences in the Drosophila dosage compensated chromosome X
In Drosophila melanogaster the single male chromosome X undergoes an average twofold transcriptional upregulation for balancing the transcriptional output between sexes. Previous literature hypothesised that a gl...
-
Article
Defining ‘T cell exhaustion’
‘T cell exhaustion’ is a broad term that has been used to describe the response of T cells to chronic antigen stimulation, first in the setting of chronic viral infection but more recently in response to tumou...
-
Article
Development, application and computational analysis of high-dimensional fluorescent antibody panels for single-cell flow cytometry
The interrogation of single cells is revolutionizing biology, especially our understanding of the immune system. Flow cytometry is still one of the most versatile and high-throughput approaches for single-cell...
-
Article
Open AccessMolecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018
Over the past decade, the Nomenclature Committee on Cell Death (NCCD) has formulated guidelines for the definition and interpretation of cell death from morphological, biochemical, and functional perspectives....
