Combinatorial pairing of independently recombined T cell receptor (TCR) α- and β-chains is central to diversifying the TCR repertoire. Although sequence motifs in one chain correlate with epitope reco...

Accurate cell type annotation is essential for single-cell transcriptomics, directly shaping downstream analyses and biological interpretations. Yet, objective evaluation of annotation quality remains...

AbstractSummary. Gene signature scoring provides a simple yet powerful approach for quantifying biological signals within single-cell omics datasets. UCell

The combination of computational design, laboratory-based screening and biophysical validation enables the de novo generation of variable heavy-chain antibody fragments and antibodies that precis...

Tumour-reactive CD8+ T cells are enriched in functional clusters with tumour cells and/or antigen-presenting cells and can be isolated and expanded from clinical samples.

Interpretation of cell states using reference single-cell maps - carmonalab/ProjecTILs

The rapid development of updated and new commercially available single-cell transcriptomics platforms provides users with a range of experimental options. Cost, sensitivity, throughput, flexibility, a...

Mechanical confinement of cancer cells at the tumour–microenvironment interface induces phenotype switching through chromatin remodelling by HMGB2, leading to a more invasive and drug-resistant state ...

This review article discusses the challenges of identifying cancer cells in single-cell data, summarizing current computational solutions as well as underexplored features of malignancy.

This review article discusses the challenges of identifying cancer cells in single-cell data, summarizing current computational solutions as well as underexplored features of malignancy.

T cells contribute to immune protection and pathogenesis in tuberculosis, but measurements of polyclonal responses have failed to resolve correlates of outcome. We report the first temporal…

Determining a gene’s functional significance within a specific cellular context has long been a challenge. We introduce a framework for quantifying gene importance by leveraging attributions learned b...

Banerjee et al. present a comprehensive T cell receptor cross-reactivity database and a hierarchical Bayesian framework to predict T cell receptor targets. Together, they reveal structural and biochem...

Arango-Argoty et al. introduce the Predictive Biomarker Modeling Framework (PBMF), an AI-driven contrastive learning framework to identify putative predictive, rather than prognostic, biomarkers for c...

Clinical diagnosis typically incorporates physical examination, patient history, various laboratory tests, and imaging studies but makes limited use of the human immune system’s own record of antigen ...

Micaela Consens et al. discuss and review the recent rise of transformer-based and large language models in genomics. They also highlight promising directions for genome language models beyond the tra...

Cells regulate their functions through gene expression, driven by a complex interplay of transcription factors and other regulatory mechanisms that together can be modeled as gene regulatory networks ...

Metastasis is the leading cause of cancer deaths; nonetheless, how tumor cells adapt to vastly different organ contexts is largely unknown. To investigate this question, we generated a transcriptomic ...

Isolating and studying haematopoietic stem cells in young and aged mice demonstrates evolutionary processes related to blood production and provides a framework for interpreting future work using labo...

PhD students can expect an extraordinary wealth of research expertise, a wide range of courses, intensive individual mentoring, an international community of researchers from over 40 countries and a l...

The University of Geneva Faculties of Medicine and Science join their forces to offer an outstanding study and research environment in Life Sciences. Highly motivated students with a Master’s degree o...

More than 3 billion years of evolution have produced an image of biology encoded into the space of natural proteins. Here, we show that language models trained at scale on evolutionary data can genera...

Arc Institute today launched the Arc Virtual Cell Atlas, a growing resource for computation-ready single-cell measurements, starting with data from over 300 million cells. The initial release of the A...

Building predictive models of the cell requires systematically mapping how perturbations reshape each cell's state, function, and behavior. Here, we present Tahoe-100M, a giga-scale single-cell atlas ...

Deep cervical lymph nodes of patients with MS have an altered B cell compartment that, in part, transcriptionally resembles an EBV infection.

A longitudinal multiomics analysis of a patient with multiple myeloma who developed peripheral T cell lymphoma after treatment with anti-BCMA CAR T cells and a GPRC5D-directed bispecific antibody reve...

Clinical diagnosis typically incorporates physical examination, patient history, various laboratory tests, and imaging studies but makes limited use of the human immune system’s own record of antigen ...

A proposed deep learning method helps to bridge the gap between preclinical cancer models and clinical tumors.