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SRX23411416: GSM8037995: 3D_IP_IV_IM, scRNAseq; Mus musculus; RNA-Seq
16 ILLUMINA (Illumina NovaSeq 6000) runs: 577M spots, 174.2G bases, 64.6Gb downloads

External Id: GSM8037995_r1
Submitted by: Graham Lab, Medicine, University of California, San Francisco, USA
Study: Interstitial Macrophage Phenotypes in Schistosoma-Induced Pulmonary Hypertension
show Abstracthide Abstract
Schistosomiasis, a prevalent cause of pulmonary hypertension (PH) globally, triggers type 2 inflammation, with interstitial macrophages (IMs) derived from monocytes playing a crucial role. These IMs produce thrombospondin-1 (TSP-1), activating TGF-ß and driving PH pathology. Two distinct IM subpopulations were identified: resident FOLR2+ IMs expressing monocyte recruitment factors, and recruited CCR2+ IMs expressing TSP-1. Upon exposure to Schistosoma, the CCR2+ subpopulation expanded. Flow cytometry and single-cell RNA sequencing confirmed these findings, revealing crosstalk between IM subpopulations. The resident FOLR2+ IMs increased expression of monocyte recruitment ligands, while the recruited CCR2+ IMs expressed elevated TSP-1, activating TGF-ß and contributing to PH. This study provides insights into the complex interplay of IM subpopulations in Schistosoma-induced PH, shedding light on potential therapeutic targets for this global health concern. Overall design: Cx3cr1+/GFP reporter mice were intraperitoneally sensitized and then intravenously challenged with S. mansoni eggs. Lung interstitial macrophages (IMs) were sorted from unexposed and at day 1, 3 and 7 following Schistosoma IV challenge by flow cytometry. At each time point, IMs were sorted from of a pair of age- and sex-matched mice (1 male and 1 female) and were combined for subsequent analyses. Single cells were captured using a Chromium Box (10X Genomics, Pleasanton, CA). Libraries were sequenced using the Illumina NovaSEQ 6000 sequencer (Illumina, Inc., San Diego, CA). Subsequently, RNA sequence reads were aligned to the Mus musculus GRCm39 reference genome using Cell Ranger v6 (10x Genomics). Downstream analysis was performed using the Seurat package in R.
Sample: 3D_IP_IV_IM, scRNAseq
SAMN39623866 • SRS20266849 • All experiments • All runs
Organism: Mus musculus
Library:
Name: GSM8037995
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC SINGLE CELL
Selection: cDNA
Layout: PAIRED
Construction protocol: Freshly collected interstitial macrophage from Cx3cr1+/GFP reporter mice used for single cell RNA sequence. Library was performed according to the manufacter's instructions (single cell 3' v2 protocol, 10x Genomics).
Runs: 16 runs, 577M spots, 174.2G bases, 64.6Gb
Run# of Spots# of BasesSizePublished
SRR2774606146,792,08714.1G5.2Gb2024-05-08
SRR2774606239,350,70611.9G4.4Gb2024-05-08
SRR2774606338,908,50711.8G4.4Gb2024-05-08
SRR2774606439,249,20211.9G4.4Gb2024-05-08
SRR2774606535,725,54510.8G4Gb2024-05-08
SRR2774606635,702,34310.8G4Gb2024-05-08
SRR2774606735,312,54810.7G4Gb2024-05-08
SRR2774606835,614,63910.8G4Gb2024-05-08
SRR2774606947,005,43114.2G5.2Gb2024-05-08
SRR2774607046,040,86413.9G5.2Gb2024-05-08
SRR2774607146,892,26514.2G5.2Gb2024-05-08
SRR2774607222,859,1336.9G2.6Gb2024-05-08
SRR2774607322,790,8016.9G2.5Gb2024-05-08
SRR2774607422,636,0396.8G2.5Gb2024-05-08
SRR2774607522,737,2776.9G2.5Gb2024-05-08
There are 1 omitted runs. See all runs in Run Selector.

ID:
31633897

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