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Graph deep learning for the characterization of tumour microenvironments from spatial protein profiles in tissue specimens

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  1. Article

    Open Access

    CasKAS: direct profiling of genome-wide dCas9 and Cas9 specificity using ssDNA map**

    Detecting and mitigating off-target activity is critical to the practical application of CRISPR-mediated genome and epigenome editing. While numerous methods have been developed to map Cas9 binding specificity...

    Georgi K. Marinov, Samuel H. Kim, S. Tansu Bagdatli, Soon Il Higashino… in Genome Biology (2023)

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    Nociceptor neurons affect cancer immunosurveillance

    Solid tumours are innervated by nerve fibres that arise from the autonomic and sensory peripheral nervous systems1–5. Whether the neo-innervation of tumours by pain-initiating sensory neurons affects cancer immun...

    Mohammad Balood, Maryam Ahmadi, Tuany Eichwald, Ali Ahmadi, Abdelilah Majdoubi… in Nature (2022)

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    Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum

    Dinoflagellate chromosomes represent a unique evolutionary experiment, as they exist in a permanently condensed, liquid crystalline state; are not packaged by histones; and contain genes organized into tandem ...

    Georgi K. Marinov, Alexandro E. Trevino, Tingting **ang, Anshul Kundaje… in Nature Genetics (2021)

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    Open Access

    Mitigation of off-target toxicity in CRISPR-Cas9 screens for essential non-coding elements

    Pooled CRISPR-Cas9 screens are a powerful method for functionally characterizing regulatory elements in the non-coding genome, but off-target effects in these experiments have not been systematically evaluated...

    Josh Tycko, Michael Wainberg, Georgi K. Marinov, Oana Ursu… in Nature Communications (2019)

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