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Showing 1–12 of 12 results
Advanced filters: Author: Leeat Keren Clear advanced filters

  • Patwa, Yamashita et al. utilize multiplexed imaging to demonstrate that profiling cell-to-cell interactions in the microenvironment can reveal predictors of recurrence and overall survival in triple-negative breast cancer, especially highlighting the relevance of immunoregulatory proteins. The authors also use multivariate analysis to provide additional prognostic information compared to clinical variables.

    • Aalok Patwa
    • Rikiya Yamashita
    • Daniel L. Rubin
    ResearchOpen Access
    Communications Biology
    Volume: 4, P: 1-14

  • Identification and classification of cells in multiplexed microscopy remain challenging. Here, the authors propose CellSighter, which uses neural networks to perform cell classification directly on multiplexed images, thus leveraging the spatial expression characteristics of proteins.

    • Yael Amitay
    • Yuval Bussi
    • Leeat Keren
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-13

  • Multiplexed tissue imaging has transformed tissue biology by revealing cellular diversity and interactions, but the analysis of its massive datasets remains a bottleneck. Here, we provide an overview of computational advancements, discuss current challenges and envision an AI-driven future in which integrated tools streamline analysis and visualization, unlocking the full potential of multiplexed imaging for breakthroughs in spatial biology.

    • Yuval Bussi
    • Leeat Keren
    Comments & Opinion
    Nature Methods
    Volume: 21, P: 2212-2215

  • Tumor heterogeneity remains an obstacle to effective clinical management of breast cancer. Two new studies use high-dimensional imaging of single-cell protein expression in situ in clinical samples to link genomic alterations to multi-cellular features of the tumor microenvironment and reveal breast-cancer phenotypes associated with clinical outcome.

    • Leeat Keren
    • Michael Angelo
    News & Views
    Nature Cancer
    Volume: 1, P: 156-157

  • A multiomics approach is used to produce a spatiotemporal atlas of the human maternal–fetal interface in the first half of pregnancy, revealing relationships among gestational age, extravillous trophoblasts and spiral artery remodelling.

    • Shirley Greenbaum
    • Inna Averbukh
    • Michael Angelo
    ResearchOpen Access
    Nature
    Volume: 619, P: 595-605

  • Eran Segal and colleagues measure the promoter activities of 70 different constructed promoter variants and find that poly(dA:dT) tracts significantly affect transcriptional outcome. They suggest that this is mediated by altering nucleosome organization and that these sequences can be manipulated to fine tune regulation of gene expression.

    • Tali Raveh-Sadka
    • Michal Levo
    • Eran Segal
    Research
    Nature Genetics
    Volume: 44, P: 743-750

  • The same protein abundance can be achieved by many combinations of transcription, translation and degradation rates. Here, the authors find that genes combining high transcription with low translation rate are rare due to a trade-off between the cost of transcription and expression noise.

    • Jean Hausser
    • Avi Mayo
    • Uri Alon
    ResearchOpen Access
    Nature Communications
    Volume: 10, P: 1-15

  • Analyzing the effects of multiple promoter motifs on gene expression can be a laborious process. Sharon et al. present a high-throughput method to measure the expression of thousands of designed yeast promoters in a single experiment and use it to reveal new features of transcriptional regulation.

    • Eilon Sharon
    • Yael Kalma
    • Eran Segal
    Research
    Nature Biotechnology
    Volume: 30, P: 521-530

  • MIBI-TOF is a mass spectrometry-based multiplexed imaging platform that has been used to map tumors. In this Resource article, MIBI-TOF is used to provide a spatial atlas of immune responses within human tuberculosis granulomas.

    • Erin F. McCaffrey
    • Michele Donato
    • Michael Angelo
    ResearchOpen Access
    Nature Immunology
    Volume: 23, P: 318-329