GEO DataSets

(Submitter supplied) To understand the ontogeny and longevity of tissue-resident macrophages in nonhuman primates (NHPs), we employ a model of autologous hematopoietic stem progenitor cell (HSPC) transplantation with HSPCs genetically modified to be marked with clonal barcodes, allowing for subsequent analysis of clonal ontogeny.

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27943

4 Samples

Download data: TSV, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL27943

13 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) To understand the ontogeny and longevity of tissue-resident macrophages in nonhuman primates (NHPs), we employ a model of autologous hematopoietic stem progenitor cell (HSPC) transplantation with HSPCs genetically modified to be marked with clonal barcodes, allowing for subsequent analysis of clonal ontogeny.

Organism:

Macaca mulatta

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL27943

9 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) The ontogeny of human lung macrophages derived from blood monocytes is poorly understood. In this study, we employed single-cell RNA-sequencing to investigate the heterogeneity of HSPC-derived human lung monocytes and macrophages in the MISTRG humanized mouse model.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21697

7 Samples

Download data: H5

(Submitter supplied) Here we show, that arterial macrophages derive predominantly from YS EMPs, which give rise to a transcriptionally distinct cluster of macrophages with mainly homeostatic and anti-inflammatory properties in steady state as well as in response to AngII inflammation. In adult mice, these EMP-derived macrophages persist for long periods of time, but decreas in absolute numbers in senescence without compensation by BM-derived progenitors. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18480

2 Samples

Download data: MTX, TSV

(Submitter supplied) The objective of this study was to characterise macrophage subsets in bone marrow (BM) isolated from Csf1r-EGFP mice. A concurrent imaging flow cytometry study conducted by our team unexpectedly revealed macrophage surface marker staining emanates from membrane-bound subcellular remnants associated with unrelated cells. Expression data from sorted BM “macrophage” populations was found to be consistent with macrophage fragments associated with non-macrophage cells. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

8 Samples

Download data: TXT

(Submitter supplied) Cells expressing macrophage markers (Cd11b+F4/80+CD169+CX3CR1neg) were sorted from the bone marrow of C57BL/6 mice and their gene expression profile analysed using RNA sequencing. Analysis of the most highly expressed genes revealed a gene expression signature consistent with a granulocyte population (i..e high expression of Ly6g and Cxcr2), rather than macrophages (i.e. low/negligible expression of Adgre1, Cd163 and Mertk). more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

3 Samples

Download data: TXT

(Submitter supplied) We show that meteorin (Metrn) from hypoxic macrophages restrains hematopoietic stem cells (HSCs) proliferation and mobilization. In macrophages specific Metrn knockout mice, reactive oxygen species levels in HSCs were upregulated through activating phospholipase C signaling. Macrophage specific knockout mice for Metrn (Metrn-fl/fl*LysM-Cre) were generated. Transcriptome profiling (RNA-Seq) and differential gene expression analysis of bone marrow LSK (lin- sca-1+ c-kit+) cells from Metrn-fl/fl*LysM-Cre (Metrn-cKO) and Metrn-fl/fl mice was performed. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

4 Samples

Download data: TXT

(Submitter supplied) To better understand molecular phenotypes of Gabbr1 null mutant hematopoietic stem and progenitor cells (HSPCs), we sorted and pooled ~12,000 HSPCs (LSK population) from WT or Gabbr1 null P15 bone marrow for bulk RNA-seq analysis.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

5 Samples

Download data: TXT

(Submitter supplied) Fetal hematopoietic stem and progenitor cells (HSPCs) migrate from fetal liver (FL) to bone marrow (BM) around birth. While adult BM HSPCs and their extrinsic regulation is well studied, little is known about the composition, function, and extrinsic regulation of the first HSPCs to enter the BM. Here, we show that HSPCs colonize multiple fetal bones by E15.5, shift from an MPP2 to an MPP3/4-dominant phenotype by birth, and display little function until E18.5, relative to their FL counterparts. We establish a transcriptional atlas of single perinatal HSPCs, and their putative BM niches, from E15.5 through P0 and show that early fetal BM (FBM) lacks HSPCs with intrinsic stem cell programs and niche cells supportive of HSPCs. In contrast, stem cell programs are preserved in neonatal BM HSPCs, which engage with a niche expressing HSC supportive factors distinct from those seen in adult BM (i.e., IGF).  

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL24247

18 Samples

Download data: TSV

(Submitter supplied) We identified two different subsets of macrophages in visceral adipose tissue. These two subsets were transcriptomically different. We observed that C3CR1-low CCR2-low macrophages are transcriptomically different after myocardial infarction (MI).

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9185

15 Samples

Download data: XLS, XLSX

(Submitter supplied) Ageing is associated with changes in the cellular composition of the immune system. During ageing, hematopoietic stem and progenitor cells (HSPCs) that produce immune cells are thought to decline in their regenerative capacity. However, HSPC function has been mostly assessed using transplantation assays, and it remains unclear how HSPCs age in the native bone marrow niche. To address this issue, we present a novel in situ single cell lineage tracing technology to quantify the clonal composition and cell production of single cells in their native niche. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16417

8 Samples

Download data

(Submitter supplied) Resident macrophages orchestrate homeostatic, inflammatory, and reparative activities. It is appreciated that different tissues instruct specialized macrophage functions. However, individual tissues contain heterogeneous subpopulations, and how these subpopulations are related is unclear. We asked whether common transcriptional and functional elements could reveal an underlying framework across tissues. more...

Organism:

Mus musculus; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL17021 GPL16791

14 Samples

Download data: MTX, TSV