AbstractMotivation. Peptide-MHC II binding drives adaptive immunity, yet discovery of novel binder peptides remains challenging due to open binding grooves

Paired histopathology and spatial transcriptomics data are advancing our understanding of tissue biology and disease, but modeling both modalities at single-cell resolution while mapping local and dis...

Metastrand integrates strand-aware metatranscriptomic and metagenomic data to distinguish microbial sense from antisense transcription at gene-level resolution, and a use case study highlights the imp...

AbstractRationale. Yes-associated protein (YAP)-mediated fibroblast mechanoactivation is an important driver of fibrosis in idiopathic pulmonary fibrosis (

Heritage diets are disappearing as food systems homogenize; their effects on immunity, metabolism and host–microbiome biology remain poorly understood. The World Diet Initiative offers a framework to ...

Steinberg et al. generated an infant nasal microbial gene atlas using samples from infants with and without cystic fibrosis. Frequent hypertonic saline inhalation reshapes airway microbiome function, ...

In this issue of Cell Host & Microbe, Steinberg et al. present a microbial gene atlas of nasopharyngeal swabs in infants with cystic fibrosis and healthy controls using shotgun metagenomic sequencing....

Inflammatory bowel disease (IBD) is a chronic immune-mediated disorder of the gastrointestinal tract whose genetic basis is only partly resolved because most risk variants identified by genome-wide as...

Advancements in human genetics have catalyzed rapid discovery in immunology. Graham and Xavier review how functional genomics and chemical biology have joined forces to uncover mechanisms of mucosal i...

Steinberg et al. generated an infant nasal microbial gene atlas using samples from infants with and without cystic fibrosis. Frequent hypertonic saline inhalation reshapes airway microbiome function, ...

INTRODUCTION Dysregulation of the peripheral immune system may increase Alzheimer's disease (AD) risk, but the underlying cell type-specific mechanisms remain unclear. METHODS We conducted Mendeli...

Recent technologies enable joint profiling of T cell RNA and T cell receptor (TCR) sequences at single-cell resolution. The authors here develop a TCR-RNA Integrating Model (TRIM) to predict intra tum...

In mice, a low-protein diet leads to a gut-microbiota-driven remodelling of adipose tissue towards brown fat, showing that gut microorganisms have a role in detecting and responding to a lack of prote...

Genome-wide analyses identify 418 independent associations with autoimmune hypothyroidism and classify risk loci into distinct groupings related to systemic autoimmunity and thyroid-specific dysfuncti...

Researchers pinpoint genetic factors linked to both higher risk of a common autoimmune disorder and lower cancer risk

In atopic dermatitis (AD), skin barrier disruption leads to chronic inflammation. Here, the authors use single-cell sequencing to map human skin, uncovering AD-specific cell states and populations inv...

Emerging research links the gut, skin, and oral microbiomes to allergies, with serine proteases (SPs) identified as potential allergens. This study le…

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Using single-nucleus RNA sequencing and spatial transcriptomics, Jaiswal et al. identify disease-associated cell communities that include aberrant transitional alveolar epithelium and pro-fibrotic fib...

Human genetic association studies highlight key genes involved in disease pathology, yet targets identified by these analyses often fall outside the t…

MIT researchers found that a protein called intelectin-2 has broad spectrum antimicrobial activity against bacteria found in the GI tract. Additionally, intelectin-2 can crosslink molecules that make ...

Intelectin-2 defends mucosal interfaces by crosslinking mucus and blocking microbial growth. This study reveals that mouse and human intelectin-2 recognizes galactose-rich glycans to bind and target d...

Emerging studies reveal that gut microbes can conjugate diverse amino acids to bile acids, known as microbially conjugated bile acids. However, their regulation and health effects remain unclear. Here, we analyzed early-life microbially conjugated bile acid patterns and their link to islet autoimmun …

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