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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 10, 2024 |
| Title |
P1-P23 Acta2-CreERT2, Yap/Taz fl/fl HET, rep2, CD45- |
| Sample type |
SRA |
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| Source name |
lung
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| Organism |
Mus musculus |
| Characteristics |
tissue: lung
genotype: Acta2-CreERT2, R26R-LSL-EYFP, Yap/Taz fl/fl HET
treatment: P1 tamoxifen
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Whole mouse lung dissociated into single-cell suspension before FACS.
10X genomics GEXv3 3’-scRNA-seq
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Read alignment using STAR-solo
Ambient RNA correction using scvi-tools scAR model
QC, filtering, normalization using scanpy
Batch-correction using harmony-pytorch
Projections and clustering using scanpy
Assembly: GRCm39
Supplementary files format and content: anndata hdf5 (h5ad) gzipped Yap/Taz KO scRNA-seq dataset, processed using scanpy, containing cell barcodes, annotations, and gene expression values (raw and normalized).
Supplementary files format and content: compressed zip file of STAR-solo gene expression matrices for lineage trace experiments.
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| Submission date |
Feb 05, 2024 |
| Last update date |
Feb 10, 2024 |
| Contact name |
Sylvia N Michki |
| E-mail(s) |
michkin@chop.edu
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| Organization name |
Children's Hospital of Philadelphia
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| Department |
Pulmonary & Sleep Medicine
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| Street address |
3615 Civic Center Blvd
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| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
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| Platform ID |
GPL24247 |
| Series (1) |
| GSE255060 |
Dynamic Hippo pathway activity underlies mesenchymal differentiation during lung alveolar morphogenesis |
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| Relations |
| BioSample |
SAMN39831117 |
| SRA |
SRX23534695 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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