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http://dx.doi.org/10.1016/j.celrep.2021.108943 | DOI Listing |
Amyotrophic lateral sclerosis (ALS) progression rates vary dramatically between patients, yet the basis of this heterogeneity remains elusive, with no prognostic biomarkers existing to guide clinical decisions or stratify patients for therapeutic trials. Here, we identify a network of coordinated immune cell types, which exhibit differential disruption across progression groups. Using mass cytometry (CyTOF) to profile 2.
View Article and Find Full Text PDFUnlabelled: While three major genetic alteration subsets, characterized by mutations in , and , are seminal in driving tumorigenesis in LUAD, their distinct effects on tumor cells and the tumor microenvironment are not fully understood. Here, we map critical oncogenic subset-specific vulnerabilities by identifying conserved cell-type-specific reprogrammings between human and mouse LUAD. Through harmonized scRNA-seq analysis of 57 human and 18 mouse specimens, we unveil that genetic alterations impose genotype-specific immune imprints on the tumor microenvironment: KRAS is associated with a transitional immune state, whereas STK11 and EGFR mutations define discrete and contrasting immune phenotypes.
View Article and Find Full Text PDFFront Immunol
September 2025
Wound Healing Center, Peking University Third Hospital, Beijing, China.
Background And Objective: Melanoma exhibits profound biological complexity, driven by immune evasion, phenotypic plasticity, and resistance to therapy. While programmed cell death (PCD) shapes tumor-immune interactions, its mechanistic landscape in melanoma remains incompletely defined. This study aims to comprehensively characterize PCD-related signatures and their associations with tumor heterogeneity, prognosis, and immunotherapeutic outcomes.
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September 2025
Department of Urology, Tianjin Institute of Urology, The Second Hospital of Tianjin Medical University, Tianjin, China.
Introduction: Clear cell renal cell carcinoma (ccRCC) is characterized by high recurrence and metastasis rates, leading to poor prognosis. Migrasomes, a class of organelles mediating intercellular communication, and long noncoding RNAs (lncRNAs) both play critical roles in tumor progression; however, the prognostic significance of migrasome-associated lncRNAs in ccRCC remains unclear.
Methods: Migrasome-associated lncRNAs were identified using The Cancer Genome Atlas (TCGA) dataset, and a prognostic risk signature was constructed.
Cell Rep Methods
August 2025
Department of Statistics, University of California, Berkeley, Berkeley, CA, USA; Computer Science Division, University of California, Berkeley, Berkeley, CA, USA. Electronic address:
Differential expression analysis is crucial in genomics, yet most methods focus only on mean shifts. Variance shifts in gene expression-especially in cellular signaling and aging-are increasingly recognized as being biologically important. We present QRscore (quantile rank score), a general non-parametric framework that extends the Mann-Whitney test to detect both mean and variance shifts through model-informed weights derived from negative binomial (NB) and zero-inflated NB (ZINB) distributions.
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