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| http://dx.doi.org/10.1111/all.14486 | DOI Listing |
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Profiling Multiple CD8+ T-Cell Functional Dimensions Enhances Breast Cancer Immune Assessment.
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Sun Yat-sen Memorial Hospital, Guangzhou, China.
CD8+ T-cell abundance is insufficient to assess antitumor immunity and shows poor performance in predicting breast cancer prognosis and immunotherapy response, presumably owing to the complexity of CD8+ T-cell functionalities. While single-cell RNA sequencing (scRNA-seq) can dissect the multifaceted functions of CD8+ T cells for better immune assessment, its clinical application is limited. Herein, we developed bulk RNA-seq-based FuncDimen models from integrative analysis of scRNA-seq and matched bulk RNA-seq data, to evaluate CD8+ T-cell functionalities across 5 dimensions: tumor reactivity, cytotoxicity, IFN-γ secretion, proliferation, and apoptosis.
View Article and Find Full Text PDFM&M: an RNA-seq based pan-cancer classifier for paediatric tumours.
EBioMedicine
December 2024
Princess Máxima Center for Paediatric Oncology, Utrecht, the Netherlands. Electronic address:
Background: With many rare tumour types, acquiring the correct diagnosis is a challenging but crucial process in paediatric oncology. Historically, this is done based on histology and morphology of the disease. However, advances in genome wide profiling techniques such as RNA sequencing now allow the development of molecular classification tools.
View Article and Find Full Text PDFPhysiological and transcriptomic characterization of cold acclimation in endodormant grapevine under different temperature regimes.
Physiol Plant
November 2024
School of Integrative Plant Science, Horticulture Section, Cornell University-Cornell AgriTech, Geneva, NY, USA.
It is essential for the survival of grapevines in cool climate viticultural regions where vines properly acclimate in late fall and early winter and develop freezing tolerance. Climate change-associated abnormities in temperature during the dormant season, including oscillations between prolonged warmth in late fall and extreme cold in midwinter, impact cold acclimation and threaten the sustainability of the grape and wine industry. We conducted two experiments in controlled environment to investigate the impacts of different temperature regimes on cold acclimation ability in endodormant grapevine buds through a combination of freezing tolerance-based physiological and RNA-seq-based transcriptomic monitoring.
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Department of Zoology & Developmental Biology, University of Osnabrück, 49076, Osnabrück, Germany.
Drosophila nephrocytes are specialised cells that share critical functional, morphological, and molecular features with mammalian podocytes. Accordingly, nephrocytes represent a preferred invertebrate model for human glomerular disease. Here, we established a method for cell-specific isolation of the two types of Drosophila nephrocytes, garland and pericardial cells, from animals of different developmental stages and ages.
View Article and Find Full Text PDFTRIM27 revealing by tumor educated platelet RNA-sequencing, as a potential biomarker for malignant ground-glass opacities diagnosis mediates glycolysis of non-small cell lung cancer cells partially through HOXM1.
Transl Lung Cancer Res
September 2024
Department of Thoracic Surgery, The Second Xiangya Hospital, Central South University, Changsha, China.
Background: Efficient ground-glass opacities (GGOs) diagnosis is challenging. A diagnostic method distinguishing malignant from benign GGOs is warranted. In this study, we sought to construct a noninvasive method based on tumor educated platelet (TEP) RNA profiles for malignant GGOs diagnosis and explore the molecular mechanism of the potential biomarker for the first time.
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