|
| Status |
Public on Oct 24, 2016 |
| Title |
Transcriptome profiling at neural tube closure site |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Maternal diabetes is a teratogen that can lead to neural tube closure defects in the offspring. We therefore sought to compare gene expression profiles at the site of neural tube closure between stage-matched embryos from normal dams, and embryos from diabetic dams. Neurulation-stage mouse embryos at 8.5 days of gestation were used to prepare neural tissue at the anterior aspect of neural tube closure site 1. Tissue was procured from the open neural tube immediately anterior of the closure site, and from the closed neural tube immediately posterior to the closure site by laser microdissection. For each sample, 10 sections were pooled, total RNA was extracted, and 7 ng of total RNA were used for expression profiling by Tag sequencing using an Applied Biosystems SolidSAGE kit for library construction, and an AB SOLiD 5500 XL instrument for sequencing. Sequence reads were mapped to RefSeq RNA, and count data per gene were obtained using a modified version of the Applied Biosystems SOLiD™ SAGE™ Analysis Software.
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| |
|
| Overall design |
diabetic dam - closed neural tube // diabetic dam - open neural tube // normal dam - closed neural tube // normal dam - open neural tube
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| |
|
| Contributor(s) |
Salbaum JM |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Oct 26, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
J. Michael Salbaum |
| Organization name |
Pennington Biomedical Research Center
|
| Department |
Regulation of Gene Expression
|
| Street address |
6400 Perkins Road
|
| City |
Baton Rouge |
| State/province |
LA |
| ZIP/Postal code |
70808 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL15907 |
AB 5500xl Genetic Analyzer (Mus musculus) |
|
| Samples (8)
|
|
| Relations |
| BioProject |
PRJNA178373 |
| SRA |
SRP016857 |
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