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| Status |
Public on Feb 26, 2020 |
| Title |
RNA-seq in Prdm16 KO doudenal and villi |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
RNA was extracted from duodenal villi from crontrol and Prdm16 KO mice 3 days after deletion
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| |
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| Overall design |
RNA was isolated from duodenal villi of WT (Prdm16loxP/loxP) or KO (Rosa26CreERT2; Prdm16loxP/loxP ) mice 3 days after tamoxifen injection. Total RNA was extracted from isolated crypts or villi using TRIzol (Invitrogen) combined with Purelink RNA Mini columns (Fisher). RNA-seq libraries were generated using a Truseq RNA Sample Preparation kit (Version 2, Illumina, RS-122-2001). RNA-seq was performed by the University of Pennsylvania Next Gen Sequencing Core using a HiSeq 2000 high output sequencer. Differential expression was determined using the EdgeR software package using log2 fold change of KO divided by WT. 0-1 False Discovery Rates were calculated from the p-value using a Benjamini-Hochberg correction.
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| |
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| Contributor(s) |
Seale P, Stine RR |
| Citation(s) |
31564549 |
| Submission date |
Sep 23, 2019 |
| Last update date |
Feb 26, 2020 |
| Contact name |
Patrick Seale |
| Organization name |
University of Pennsylvania
|
| Department |
Institute for Diabetes, Obesity & Metabolism
|
| Street address |
Smilow Center for Translational Research, 12th Floor 3400 Civic Center Blvd. Bldg 421
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE121014 |
Control of region-specific intestinal metabolism and maintenance by PRDM16 |
|
| Relations |
| BioProject |
PRJNA573714 |
| SRA |
SRP223016 |
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