|
| Status |
Public on Jul 29, 2020 |
| Title |
1437 P2/3 |
| Sample type |
RNA |
| |
|
| Source name |
pancreata
|
| Organism |
Mus musculus |
| Characteristics |
sample type: High Grade P2/3
sample preparation: fresh-frozen LCM samples
genotype/variation: KPC
|
| Treatment protocol |
Normal, low grade PanIN1, high grade PanIN2/3, and PDA tissue were microdissected using LCM (Leica LMD7000)
|
| Growth protocol |
Pancreata were isolated from aged KPC (4-20 weeks) or WT C57BL/6 mice and fresh-frozen in Tissue-Tek OCT (Sakura Finetek USA) or formalin-fixed and paraffin-embedded (FFPE)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from fresh-frozen LCM samples using the RNAqueous-Micro Total RNA Isolation Kit (Thermo Fisher Scientific)
|
| Label |
FAM
|
| Label protocol |
converted to cDNA using the TaqMan MicroRNA Reverse Transcription Kit (Thermo Fisher Scientific) with Megaplex RT Primers Rodent Pool A and B (Thermo Fisher Scientific). cDNA was preamplified 18 cycles using the TaqMan PreAmp Master Mix (Thermo Fisher Scientific) and Megaplex PreAmp Primers Rodent Pool A and B (Thermo Fisher Scientific)
|
| |
|
| Hybridization protocol |
n/a
|
| Scan protocol |
n/a
|
| Description |
Test
|
| Data processing |
P-values for differential expression statistics were generated and adjusted for multiple hypothesis testing using ExpressionSuite (Thermo Fisher Scientific).
All Ct values were normalized to endogenous levels of U6 snRNA. Fold changes were quantified utilizing the Ct method in which all PanIN groups were normalized to the normal group (normal ducts isolated from WT C57BL/6 mice).
|
| |
|
| Submission date |
Jan 14, 2020 |
| Last update date |
Jul 29, 2020 |
| Contact name |
Jacquelyn W Zimmerman |
| E-mail(s) |
jzimme27@jhmi.edu, jackiezimm133@gmail.com
|
| Phone |
2566824782
|
| Organization name |
Johns Hopkins Sidney Kimmel Comp. Cancer Center
|
| Street address |
1650 Orleans St, Room 186
|
| City |
Baltimore |
| State/province |
Maryland |
| ZIP/Postal code |
21287 |
| Country |
USA |
| |
|
| Platform ID |
GPL22525 |
| Series (1) |
| GSE143648 |
Inhibition of miR-21 regulates mutant KRAS effector pathways and intercepts pancreatic ductal adenocarcinoma development [miRNA] |
|
