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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 14, 2024 |
| Title |
Modeling kidney development, disease, and plasticity with clonal expandable nephron progenitor cells and nephron organoids |
| Organism |
Homo sapiens |
| Experiment type |
Other
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| Summary |
Nephron progenitor cells (NPCs) self-renew and differentiate into nephrons, the functional units of the kidney. Here we report manipulation of p38 and YAP activity creates a synthetic niche that allows the long-term clonal expansion of primary mouse and human NPCs, and induced NPCs (iNPCs) from human pluripotent stem cells. Cultured iNPCs resemble closely primary human NPCs, generating nephron organoids with abundant distal convoluted tubule cells, which are not observed in published kidney organoids. The synthetic niche reprograms differentiated nephron cells into NPC state, recapitulating the plasticity of developing nephron in vivo. Scalability and ease of genome-editing in the cultured NPCs allow for genome-wide CRISPR screening, identi-fying novel genes associated with kidney development and disease. A rapid, efficient, and scala-ble organoid model for polycystic kidney disease was derived directly from genome-edited NPCs, and validated in drug screen. These technological platforms have broad applications to kidney development, disease, plasticity, and regeneration.
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| Overall design |
Cell populations profiling analysis of expanded iNPC-derived nephron organoids collected at Day 21 time point through 10x Genomics Multiome (scRNA/scATAC-seq) assays
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| Web link |
https://pubmed.ncbi.nlm.nih.gov/38692273/
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| Contributor(s) |
Huang B, Zeng Z, Li H, Li Z, Chen X, Guo J, Zhang CC, Schreiber ME, McMahon AP, Li Z |
| Citation(s) |
38692273 |
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| Submission date |
Dec 21, 2023 |
| Last update date |
Jun 14, 2024 |
| Contact name |
Kari Ann Koppitch |
| E-mail(s) |
[email protected]
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| Organization name |
USC
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| Department |
Stem Cell
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| Lab |
McMahon
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| Street address |
1425 San Pablo Street, BCC 312
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| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90033-9080 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (4)
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| GSM7989239 |
iNPC derived organoid, Replicate 1 d21, ATAC Library |
| GSM7989240 |
iNPC derived organoid, Replicate 1 d21, GEX Library |
| GSM7989241 |
iNPC derived organoid, Replicate 2 d21, ATAC Library |
| GSM7989242 |
iNPC derived organoid, Replicate 2 d21, GEX Library |
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| Relations |
| BioProject |
PRJNA1055567 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE251862_iNPC1_atac_fragments.tsv.gz |
1.5 Gb |
(ftp)(http) |
TSV |
| GSE251862_iNPC1_atac_fragments.tsv.gz.tbi.gz |
930.7 Kb |
(ftp)(http) |
TBI |
| GSE251862_iNPC1_filtered_feature_bc_matrix.h5 |
100.5 Mb |
(ftp)(http) |
H5 |
| GSE251862_iNPC2_atac_fragments.tsv.gz |
1.4 Gb |
(ftp)(http) |
TSV |
| GSE251862_iNPC2_atac_fragments.tsv.gz.tbi.gz |
902.3 Kb |
(ftp)(http) |
TBI |
| GSE251862_iNPC2_filtered_feature_bc_matrix.h5 |
93.7 Mb |
(ftp)(http) |
H5 |
SRA Run Selector |
| Raw data are available in SRA |
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