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  1. Article

    Open Access

    Map** human tissues with highly multiplexed RNA in situ hybridization

    In situ transcriptomic techniques promise a holistic view of tissue organization and cell-cell interactions. There has been a surge of multiplexed RNA in situ map** techniques but their application to human ...

    Kian Kalhor, Chien-Ju Chen, Ho Suk Lee, Matthew Cai, Mahsa Nafisi… in Nature Communications (2024)

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  2. Article

    Open Access

    Gene panel selection for targeted spatial transcriptomics

    Targeted spatial transcriptomics hold particular promise in analyzing complex tissues. Most such methods, however, measure only a limited panel of transcripts, which need to be selected in advance to inform on...

    Yida Zhang, Viktor Petukhov, Evan Biederstedt, Richard Que, Kun Zhang… in Genome Biology (2024)

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  3. No Access

    Article

    Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

    Over the past decade, a growing community of researchers has emerged around the use of constraint-based reconstruction and analysis (COBRA) methods to simulate, analyze and predict a variety of metabolic pheno...

    Jan Schellenberger, Richard Que, Ronan M T Fleming, Ines Thiele… in Nature Protocols (2011)