Data
Web Tools for Exploring Our Single Cell RNA-seq Data
Note: In light of recent cyberattack incidents at the University of Michigan, RShiny services appear to be non-functional for public use. We recommend that investigators utilize our GitHub repository to do the relevant analyses as an alternative (https://github.com/leeju-umich/Park_et_al_Cell_Reports_2020), which contains the source codes and data necessary to run these applications. We apologize for the inconvenience.
Data associated with Park et al. Transcriptome landscape of DNA-damage response at single-cell resolution.
*** For gene names, please type the official gene symbol approved by the HUGO Gene Nomenclature Committee (e.g. CDKN1A, MDM2).
RShiny tools for exploring scRNA-seq dataset on RKO cells treated with different doses of 5FU.
(1) 2-dimensional analyses (t-SNE, UMAP & individual gene expression) on scaled data & magic-imputed data
http://shiny.sph.umich.edu/hmkang/RSH/RKO2D
(2) Analysis of single cell gene expression across different subgroups of cells partitioned with 5FU dose and group identity, expressed as mean±SEM. [Coming Soon]
http://shiny.sph.umich.edu/hmkang/RSH/RKOgraph
RShiny tools for exploring scRNA-seq dataset on HCT116 cells treated with different doses of 5FU.
(3) 2-dimensional analyses (t-SNE and UMAP) on scaled data
http://shiny.sph.umich.edu/hmkang/RSH/HCT1162D
(4) Analysis of single cell gene expression across different subgroups of cells partitioned with 5FU dose and group identity, expressed as mean±SEM.
http://shiny.sph.umich.edu/hmkang/RSH/HCT116graph
RShiny tools for exploring scRNA-seq dataset on SW480 cells treated with different doses of 5FU.
(5) 2-dimensional analyses (t-SNE and UMAP) on scaled data
http://shiny.sph.umich.edu/hmkang/RSH/SW4802D
(6) Analysis of single cell gene expression across entire population treated with different 5FU dose, expressed as mean±SEM.