ENAapplication/xmlftp.sra.ebi.ac.uk/vol1/fastq/SRR172/057/SRR17261957/SRR17261957.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/056/SRR17261956/SRR17261956.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/060/SRR17261960/SRR17261960.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/059/SRR17261959/SRR17261959.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/055/SRR17261955/SRR17261955.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/061/SRR17261961/SRR17261961.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/062/SRR17261962/SRR17261962.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/058/SRR17261958/SRR17261958.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/064/SRR17261964/SRR17261964.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR172/063/SRR17261963/SRR17261963.fastq.gzprimaryOK200GenomicsEdward Schwarz, Center for Musculoskeletal Research, University of Rochester Medical Centerhttps://www.ebi.ac.uk/ena/browser/view/PRJNA789275Mus musculusLymphatic dysfunction exists in tumor necrosis factor transgenic (TNF-Tg) mice and rheumatoid arthritis (RA) patients. While joint-draining TNF-Tg popliteal lymphatic vessels (PLVs) have deficits in contractility during end-stage arthritis, the nature of lymphatic muscle cells (LMCs) and their TNF altered transcriptome remain unknown. Thus, we performed single-cell RNA-sequencing (scRNAseq) on TNF-Tg vs wild-type peripheral vasculature. We utilized strategic enrichment for smooth muscle cells using a Cspg4-Cre;tdTomato reporter model, and through post-hoc analysis we validated the ability to enrich for these tdTomato+ populations based on scatter alone. As such, we evaluated changes in LMC populations vs vascular smooth muscle cells (VSMCs), and dynamic changes in peri-vascular immune cell populations during chronic inflammatory-erosive arthritis. Overall design: Four total single-cell RNA-seq samples are provided. Two samples are replicates from Cspg4-Cre;tdTomato mice with cell enrichment for tdTomato+ cells (tdT1 and tdT2). Two samples derive from age-matched (9-months-old) WT and TNF-Tg, where the WT serves as control to the TNF-Tg mice with chronic inflammatory-erosive arthritis. The WT and TNF-Tg samples were sorted based on scatter alone. Each sample consists of cell isolates derived from n = 3 mice pooled together, and all mice were on a C57BL6 background.ENA3.4.22.-, d230, TNF-alpha, determination, Laboratory, TNF, Mus domesticus, dTAFII250, mini-ICE, CASP-14, Capillary, EfW1, Vein, House Mouse, dmTAF[[II]]230, TNF-a, Lymphatic, dmTAF1, House, Taf230, Lymphatic Capillary, non-striated muscle cell, Lymphatic Capillaries, Mus musculus domesticus, Lymphatic Venule, xtnf-alpha, Mice, TAF250, Taf200, dTAF[[II]]250, smooth muscle, TFIID TAF250, cel, regg1, cell, Venule, SMCs, Swiss, myocytes, RATTNF, CG12919, Taf1p, Swiss Mice, DmelCG12919, Ect1, Capillaries, DIF, dTAF250, darth, TNFSF2, Venules, TAF, SMC cell, dif, tnfa, dTAF[[II]]230, TAF[[II]]250, xtnf, mouse, TAF200, TNFA, ggr, l(3)84Ab, BG:DS00004.13, TAFII-250, TAF250/230, Cell, dTAF230, dt1, Lymphatic Vessel, tnfsf2, TAFII250, Mus, p230, Regg1, chemical analysis, Mini-ICE, tnf-alpha, TAF[[II]]250/230, TFIID, Mus musculus., Taf[[II]]250, Mus musculus, TAF[[II]]230, Caspase-14 subunit p10, mice, Vessel, Swiss Mouse, House Mice, TAF[II]250, Caspase-14 subunit p19, TNFalpha, BcDNA:RH51659, CG17603, MICE, TAF[[II]], Laboratory Mice, domesticus, DmelCG17603, Vessels, Taf250, SR3-5, Egr, Tnfa, Mouse, assay, Lymphatic Venules, Laboratory Mouse, Tnfsf1a, TAF230, TAF1, smooth muscle fiber3.4.22.-, d230, TNF-alpha, determination, Laboratory, TNF, Mus domesticus, dTAFII250, mini-ICE, CASP-14, Capillary, EfW1, Vein, House Mouse, dmTAF[[II]]230, TNF-a, Lymphatic, dmTAF1, House, Taf230, Lymphatic Capillary, non-striated muscle cell, Lymphatic Capillaries, Mus musculus domesticus, Lymphatic Venule, xtnf-alpha, Mice, TAF250, Taf200, dTAF[[II]]250, smooth muscle, TFIID TAF250, cel, regg1, cell, Venule, SMCs, Swiss, myocytes, RATTNF, CG12919, Taf1p, Swiss Mice, DmelCG12919, Ect1, Capillaries, DIF, dTAF250, darth, TNFSF2, Venules, TAF, SMC cell, dif, tnfa, dTAF[[II]]230, TAF[[II]]250, xtnf, mouse, TAF200, TNFA, ggr, l(3)84Ab, BG:DS00004.13, TAFII-250, TAF250/230, Cell, dTAF230, dt1, Lymphatic Vessel, tnfsf2, TAFII250, Mus, p230, Regg1, chemical analysis, Mini-ICE, tnf-alpha, TAF[[II]]250/230, TFIID, Mus musculus., Taf[[II]]250, Mus musculus, TAF[[II]]230, Caspase-14 subunit p10, mice, Vessel, Swiss Mouse, House Mice, TAF[II]250, Caspase-14 subunit p19, TNFalpha, BcDNA:RH51659, CG17603, MICE, TAF[[II]], Laboratory Mice, domesticus, DmelCG17603, Vessels, Taf250, SR3-5, Egr, Tnfa, Mouse, assay, Lymphatic Venules, Laboratory Mouse, Tnfsf1a, TAF230, TAF1, smooth muscle fiber0.00.00.00.00.0falseSingle Cell Transcriptomic Analysis of Popliteal Lymphatic Vessels and Peripheral Veins with Smooth Muscle Cell Enrichment in TNF-Tg vs WT MiceSingle Cell Transcriptomic Analysis of Popliteal Lymphatic Vessels and Peripheral Veins with Smooth Muscle Cell Enrichment in TNF-Tg vs WT Mice2022-06-142022-03-10PRJNA789275GSE1909993525595410090