000002955 001__ 2955 000002955 005__ 20250424232805.0 000002955 0247_ $$2DOI$$a10.6083/M4K35SMM 000002955 037__ $$aETD 000002955 245__ $$aUnderstanding what's "under the hood": increasing accessibility in omics research 000002955 260__ $$bOregon Health and Science University 000002955 269__ $$a2015 000002955 336__ $$aThesis 000002955 502__ $$bM.S. 000002955 520__ $$aWith the recognition of the need for reproducibility in the face of increasing data complexity, we implemented a series of metrics and an interactive visualization prototype to facilitate discovery and interpretation for next generation sequencing use cases: copy number variant detection with exome sequencing and chromatin immunoprecipitation followed by sequencing (ChIP-seq). This interactive framework is an important first step to provide measurable and consistent check of data validity for each step of the analysis. The goal is to allow scientists to assess the validity of their methods, ensure the accuracy of the data and guide prioritization by obtaining high confidence findings. It is important to note that the interactive component allows identification of issues or characteristics of the data that would have been missed in traditional static plots. We note this is an iterative process and with further evaluation and testing, additional metrics and contextual views can be added. 000002955 540__ $$fCC BY 000002955 542__ $$fIn copyright - single owner 000002955 650__ $$aReproducibility of Results$$028215 000002955 650__ $$aHigh-Throughput Screening Assays$$038869 000002955 650__ $$aData Display$$017386 000002955 650__ $$aData Interpretation, Statistical$$017387 000002955 691__ $$aSchool of Medicine$$041369 000002955 692__ $$aDepartment of Medical Informatics and Clinical Epidemiology$$041422 000002955 7001_ $$aPatterson, Janice$$uOregon Health and Science University$$041354 000002955 7201_ $$aMcWeeney, Shannon$$uOregon Health and Science University$$041354$$7Personal$$eAdvisor 000002955 8564_ $$9eb1f11c8-34db-4726-93a0-03b5a3ef489d$$s2341301$$uhttps://digitalcollections.ohsu.edu/record/2955/files/3729_etd.pdf$$ePublic$$2c086a0d277e2d41cd696936bc7671f4e$$31 000002955 905__ $$a/rest/prod/0g/35/4f/45/0g354f45p 000002955 909CO $$ooai:digitalcollections.ohsu.edu:2955$$pstudent-work 000002955 980__ $$aBiomedical Informatics