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Series GSE249780 Query DataSets for GSE249780
Status Public on Feb 26, 2024
Title Sox9 switch links regeneration to fibrosis at the single-cell level in mammalian kidneys [snATAC-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The steps governing healing with or without fibrosis within the same microenvironment are unclear. After acute kidney injury (AKI), the injured proximal tubular epithelial cells activate Sox9 for self-restoration. Using head-to-head comparison of injury- induced Sox9-lineages via spatiotemporal mapping, single-cell sequencing, and single-nuclei chromatin accessibility profiling, we identified a dynamic SOX9 switch. Lineages that regenerated epithelia silenced SOX9 and healed without fibrosis (SOX9on-off). In contrast, lineages that maintained Sox9 activity in attempt to regenerate, demarcated by SOX9-induced Cadherin 6 (SOX9on-on CDH6pos ) cell state, generated single-cell Wnt activity to provoke a fibroproliferative response in adjacent fibroblasts, driving AKI to chronic kidney disease. Transplanted human kidneys displayed similar SOX9/CDH6/WNT2B responses post-injury. Thus, we uncovered a mechanism linking fibrosis to sustained efforts to regenerate the injured tissue.
Overall design single-nuclei ATACseq datasets of the day10 FACS-enriched Sox9-lineage cells from the acutely injured murine kidneys. Two biological replicates.
Contributor(s) Aggarwal S, Wang Z, Rincon Fernandez Pacheco D, Rinaldi A, Rajewski A, Callemeyn J, Van Loon E, Lamarthée B, Covarrubias AE, Hou J, Yamashita M, Akiyama H, Ananth Karumanchi S, Svendsen CN, Noble PW, Jordan SC, Breunig J, Naesens M, Cippà PE, Kumar S
Citation(s) 38386758
Submission date Dec 08, 2023
Last update date Feb 27, 2024
Contact name AGCT Core
Organization name Cedars Sinai Medical Center
Department BMS
Street address 8687 Melrose Ave, PDC B230
City West Hollywood
State/province CA
ZIP/Postal code 90069
Country USA
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (2)
GSM7964190 Pos121222 - snATACseq
GSM7964191 Pos121322 - snATACseq
This SubSeries is part of SuperSeries:
GSE249781 Sox9 switch links regeneration to fibrosis at the single-cell level in mammalian kidneys
BioProject PRJNA1050316

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Supplementary file Size Download File type/resource
GSE249780_RAW.tar 1.8 Gb (http)(custom) TAR (of H5, TBI, TSV)
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Raw data are available in SRA

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