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  "Title": "Denoising Algorithm based on Relevance network Topology",
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  "Date": "2015-05-23",
  "Author": "Yan Jiao, Katherine Lawler, Andrew E Teschendorff, Charles\nShijie Zheng",
  "Maintainer": "Charles Shijie Zheng <charles_zheng@live.com>",
  "Description": "Denoising Algorithm based on Relevance network Topology\n(DART) is an algorithm designed to evaluate the consistency of\nprior information molecular signatures (e.g in-vitro\nperturbation expression signatures) in independent molecular\ndata (e.g gene expression data sets). If consistent, a pruning\nnetwork strategy is then used to infer the activation status of\nthe molecular signature in individual samples.",
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      "title": "Denoising Algorithm based on Relevance network Topology",
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        "DoDART function",
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        "Citing the DART package",
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        "Session information"
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