Extended Data Fig. 11: Depletion of NIPBL in primary bone marrow haematopoietic progenitors instructs the onset of neutrophil development.
From: Nuclear morphology is shaped by loop-extrusion programs
a, UMAP plot derived from two independent replicates of ATTO-550− (control) and ATTO-550+ (NIPBL-depleted) populations is shown. Different clusters representing hematopoietic populations are shown for GMPs, myeloblasts/promyelocytes, myelocytes, immature neutrophils, mature neutrophils, transitional neutrophils, macrophage progenitors, pDCs, cDCs, basophils and myeloid/lymphoid progenitors. b, Violin plots show the expression levels of cluster-specific transcripts. c, UMAP plots of cluster-specific transcript distribution among GMPs, cycling cells, myeloblasts/promyelocytes, myelocytes, immature neutrophils, mature neutrophils, transitional neutrophils, macrophage progenitors, pDCs, cDCs, basophils and myeloid/lymphoid progenitors are shown. d, Heat map indicating cell-type specific expression of a selected group of transcripts. Cluster-specific differentially expressed genes were identified using Wilcoxon rank-sum test implemented in Seurat min.pct of 0.25 and a logfc.threshold of 0.25 (FindMarkers). e, UMAP plots were derived by integrating and clustering of scRNA-seq reads from bone-marrow-derived mouse neutrophils25, ATTO-550− (control) and ATTO-550+ (NIPBL-depleted) populations. f, The proportion of indicated cell types in ATTO-550− (control) and ATTO-550+ (NIPBL-depleted) populations is shown. g, Cellular dynamics analysis indicates developmental trajectories adopted by differentiating neutrophils. Putative differentiation trajectories are shown. h, Pseudotime visualization of neutrophil differentiation instructed by NIPBL depletion in primary hematopoietic progenitors is shown. scRNA-seq data were generated from two independent biological replicates.
