As a proof of concept, we isolated HSPCs from CMP-pattern and GMP-pattern MDS patients whose disease progressed despite HMA therapy and treated these cells with specific inhibitors targeting each survival pathway. Three days of treatment with the BCL-2 inhibitor ABT-199 at a dose that did not...
We computed CellRank’s directed transition matrix, and then coarse-grained it into 12 macrostates (Fig.2b) based on eigenvalue gap analysis (Supplementary Fig.1a,b), revealing a block-like structure in the transition matrix (Fig.2cand Extended Data Fig.4a–c). Macrostates, annotated accordi...
(C) t-SNE map of immune cells from all 8 breast tumors after Biscuit normalization and imputation showing rich structure and diverse cell types. Cells colored by Biscuit clusters and labeled with inferred cell types. (D) Histogram depicting entropy of the tumor (patient) distribution as a measu...
Haematopoietic stem cells niches: Interrelations between structure and function AlpCan, inTransfusion and Apheresis Science, 2008 The idea that stem cells are maintained in a specialized microenvironment that is commonly known as the “stem-cell niche” originates from studies on mammalianhaematopoietic ...
TLSs in MIBC are distinguished by the presence of a central region of CD19+ B cells forming a follicular structure characteristic of a germinal center and surrounded by T cells. Interferon-stimulated B-cell subtype and tertiary lymphoid structures are associated with favorable survival in MIBC pati...
Probing the unseen structure and function of liver cells through atomic force microscopy. Semin Cell Dev Biol. 2018;73:13–30. Article CAS PubMed Google Scholar Ibrahim SH. Sinusoidal endotheliopathy in nonalcoholic steatohepatitis: therapeutic implications. Am J Physiol Gastrointest Liver Physiol. ...
To better understand the structure-function relationship of a tissue, the concept of tissue cellular neighborhoods (TCNs) or spatial domains as well as their identification tools have been proposed. However, we found several limitations as below. (1) Most existing methods are originally designed for...
In this review, cadmium effects on organellar structure and function will be critically discussed with particular consideration to disruption of organelle physiology in vertebrates.This is a preview of subscription content, log in via an institution to check access. ...
(Fig.5A, B). Then, the tissue domains were identified based on the de novo cell-type map (Fig.6), with the result showing the laminar structure of the VISp region. We identified two distinct layer 4 (L4) neuronal clusters. Interestingly, both of them showed the highest correlation to ...
The intuition behind this metric is that if a query cell type is well-represented by the reference PC structure, then it should map closely to a reference centroid. We first project the query into reference pre-Harmony PCs, then calculate the Mahalanobis distance between the query cluster and ...