9 Result(s)
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Alexandro E. Trevino
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Article
Open AccessCasKAS: 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...
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Article
Graph deep learning for the characterization of tumour microenvironments from spatial protein profiles in tissue specimens
Multiplexed immunofluorescence imaging allows the multidimensional molecular profiling of cellular environments at subcellular resolution. However, identifying and characterizing disease-relevant microenvironm...
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Article
Open AccessNociceptor 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...
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Article
Open AccessTranscription-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 ...
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Open AccessMitigation 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...
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Article
An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
The Omni-ATAC protocol improves the signal-to-background ratio in chromatin accessibility profiles and is suitable for a range of cell lines and primary cell types, as well as frozen tissue.
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Article
Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex
Systematic interrogation of gene function requires the ability to perturb gene expression in a robust and generalizable manner. Here we describe structure-guided engineering of a CRISPR-Cas9 complex to mediate...
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Article
Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells
Genome-wide analysis of Cas9-DNA interactions in mammalian cells shows widespread binding but low levels of cleavage.
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Article
Optical control of mammalian endogenous transcription and epigenetic states
Here the customizable TALE DNA-binding domain was integrated with the light-sensitive cryptochrome 2 protein and its interacting partner (CIB1) from Arabidopsis thaliana, thereby creating an optogenetic two-hybri...
