Thys Potgieter's activity
From 07/16/2019 to 08/14/2019
08/08/2019
- 05:45 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 2.00 hours (Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization )
- Contaminant versus total protein content visualization figure (Added to QC component of pipeline)
08/05/2019
- 02:06 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization
- 02:06 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 3.00 hours (Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization )
- Runs for cells and tissues completed, QC figures added to meeting presentation, output moved to research drive.
- 02:04 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 3.00 hours (Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization )
- Gene and protein ID added to differential abundance analysis output, unit tests.
07/25/2019
- 01:34 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 2.00 hours (Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization )
- Exclude samples from downstream analysis using config file
07/23/2019
- 02:07 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 4.00 hours (Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization )
- Boxplots for peptide identifications, scatterplots of sample protein intensities against median (QC).
07/19/2019
- 06:39 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 4.00 hours (Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization )
- Bayes PCA tested, configurable normalization method in pipeline. Box plots improved to exclude outliers in plots
- 06:38 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Feature #93 (Resolved): Improve normalization and imputaiton of tissue sample proteomics data and visualization
- 1) configurable normalization method (eg median, quantiles)
2) configurable imputation method (eg bayes PCA, KNN)
3...
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