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Status |
Public on Mar 01, 2022 |
Title |
Epi_NoFGF2_biological_rep3 |
Sample type |
RNA |
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Source name |
Organoids_NoFGF2
|
Organism |
Mus musculus |
Characteristics |
age: E16 tissue: organoids cell type: Epithelial treatment: control
|
Treatment protocol |
Grown with or without FGF2 containing media
|
Growth protocol |
Organoids were cultured for 7 days with a 4 day media change
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using RNeasy Mini-Kit (Qiagen), then cDNA synthesis and amplification (Clariom D Kit)
|
Label |
biotin
|
Label protocol |
Samples were enzymatically fragmented and biotinylated by terminal deoxynucleotidyl transferase (TdT) (Clariom D Kit)
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Hybridization protocol |
Samples were hybridized to the Affymetrix Clariom D Assay, Mouse for 16-18 h at 45°C.
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Scan protocol |
Microarrays were scanned using GeneChip® Scanner 3000
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Description |
Epithelial portion of organoids grown for 7 days
|
Data processing |
Data were processed using Transcriptome Analysis Console software and R/Rstuio. The data were analyzed with the robust multichip analysis (RMA) algorithm using default analysis settings and global scaling as a normalization method. Values are presented according to log2 RMA signal intensity. We defined the genes with a fold-change of more than 1.99 or less than 1.99 and a p-value of less than 0.05 as different expression genes Clariom_S_Mouse.r1.pgf Clariom_S_Mouse.r1.mps
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|
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Submission date |
Aug 03, 2021 |
Last update date |
Mar 01, 2022 |
Contact name |
Nicholas Moskwa |
E-mail(s) |
nmoskwa@albany.edu
|
Organization name |
University at Albany
|
Street address |
1400 Washington Avenue
|
City |
Albany |
State/province |
New York |
ZIP/Postal code |
12222 |
Country |
USA |
|
|
Platform ID |
GPL23038 |
Series (2) |
GSE181423 |
Expression data from E16 mouse embryonic organoids - grown with epithelium and stroma in the presence or absence of FGF2 [Epi] |
GSE181430 |
Single-cell sequencing reveals PDFGRα+ stromal cell subpopulations that promote proacinar differentiation in embryonic salivary gland organoids |
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