Predicting Cancer Prognosis and Drug Response from the Tumor Microbiome

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dc.contributor.advisorRuppin, Eytanen_US
dc.contributor.advisorPatro, Roberten_US
dc.contributor.authorHermida, Leandro Cruzen_US
dc.contributor.departmentComputer Scienceen_US
dc.contributor.publisherDigital Repository at the University of Marylanden_US
dc.contributor.publisherUniversity of Maryland (College Park, Md.)en_US
dc.date.accessioned2022-06-19T05:31:21Z
dc.date.available2022-06-19T05:31:21Z
dc.date.issued2021en_US
dc.description.abstractTumor gene expression is predictive of patient prognosis in some cancers. However, RNA-seq and whole genome sequencing data contain not only reads from host tumor and normal tissue, but also reads from the tumor microbiome, which can be used to infer the microbial abundances in each tumor. Here, we show that tumor microbial abundances, alone or in combination with tumor gene expression data, can predict cancer prognosis and drug response to some extent – microbial abundances are significantly less predictive of prognosis than gene expression, although remarkably, similarly as predictive of drug response, but in mostly different cancer-drug combinations. Thus, it appears possible to leverage existing sequencing technology, or develop new protocols, to obtain more non-redundant information about prognosis and drug response from RNA-seq and whole genome sequencing experiments than could be obtained from gene expression or mutation data alone.en_US
dc.identifierhttps://doi.org/10.13016/0esm-8xzz
dc.identifier.urihttp://hdl.handle.net/1903/28858
dc.language.isoenen_US
dc.subject.pqcontrolledComputer scienceen_US
dc.subject.pqcontrolledBioinformaticsen_US
dc.subject.pqcontrolledBiologyen_US
dc.subject.pquncontrolledCancer genomicsen_US
dc.subject.pquncontrolledCancer microenvironmenten_US
dc.subject.pquncontrolledComputational modelsen_US
dc.subject.pquncontrolledMachine learningen_US
dc.subject.pquncontrolledMicrobiomeen_US
dc.subject.pquncontrolledTumor biomarkersen_US
dc.titlePredicting Cancer Prognosis and Drug Response from the Tumor Microbiomeen_US
dc.typeThesisen_US

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