scOrange Blog


By: Iva Černoša, Jul 28, 2019

Profiling Human Osteoarthritis Cartilage Chondrocytes

Identify the genes affiliated with osteoarthritis progression in the cartilage data gathered by Ji Q et al. (Annals of the Rheumatic Diseases, 2019) to shed a light on predicting clinical outcomes of the patients


By: Iva Černoša, Jun 14, 2019

Embedding New Cells onto an Existing t-SNE Projection

We analyse cell population changes in the course of chemotherapy by recreating a part of a study from Galen et al. (Cell, 2019) and projecting single cell data set from an AML patient undergoing treatment onto a t-SNE of a healthy individual.


By: Iva Černoša, Jun 6, 2019

Identification of Cell Populations in Healthy Bone Marrow

We identify cell populations in a dataset of healthy human bone marrow cells from Galen et al. (Cell, 2019) and take a look at the putative cell differentiation trajectories.


By: Iva Černoša, May 10, 2019

Pinpointing Lineage Differentiation in Human Preimplantation Embryotic Cells

Combine clustering and time component to pinpoint the time of trophectoderm (TE) and inner cell mass (ICM) differentiation in human preimplantation embryotic cells and recreate a part of study by Petropoulos et al. (Cell, 2016)