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Targeting the Engine Room of the Cancer Cell

News   Jun 19, 2018 | Original story from Columbia University Irving Medical Center (CUIMC)

 
Targeting the Engine Room of the Cancer Cell

The pipeline consists of a series of pre-computed (*) components, including a reference set of more than 13,000 tumor expression profiles representing 35 different tumor types, a collection of 28 tissue context-specific interactomes and a database of context-specific mechanism of action (MoA) for >400 FDA-approved drugs and investigational compounds in oncology. The transcriptome of the perturbed cell lines is profiled at low cost by PLATE-Seq. The process begins with the expression profile of a single patient sample, which is compared against the tumor databank to generate a tumor gene expression signature. This signature is interpreted by VIPER using a context-matched interactome to identify the set of most dysregulated proteins, which constitute the regulators of the tumor cell state -- tumor checkpoint. These proteins are then aligned against the drugs' and compounds' MoA database, to prioritize compounds able to invert the activity pattern of the tumor checkpoint. Credit: CUIMC/Califano Lab

 
 
 

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