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| Status |
Public on May 02, 2018 |
| Title |
RNA-Sequencing analysis of differential gene transcription profiles induced by the prenatal/maternal broccoli sprout (BSp) diet |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: We tested global gene transcriptome changes by RNA-sequencing analysis in the offspring breast tumors of SV40 transgenic mice to further identify key epigenetic-controlled genes in regulation of the prenatal/maternal BSp diet-mediated early breast cancer prevention.
Method: Mouse offspring mammary tumor mRNA from control and maternal BSp treatment were generated by deep sequencing, in duplicate or triplicate, using Illumina NextSeq500 platform (GPL19057). The sequence reads that passed quality filters were analyzed. We utilized the R/Bioconductor package DESeq to evaluate differential gene expression for sequence count data by the use of negative binomial distributio. qRT–PCR validation was performed using TaqMan and SYBR Green assays.
Conclusions: Our data showed differential transcriptome distribution in the breast tumors of mouse offspring between the control and prenatal/maternal BSp treatment groups.
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| |
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| Overall design |
Total RNA obtained from the offspring breast tumors of SV40 transgenic mice with mothers fed either control or BSp diets, and analyzed by Illumina NextSeq500 platform (GPL19057).
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| Contributor(s) |
Li Y, Buckhaults P |
| Citation(s) |
29764806 |
| |
| Submission date |
May 01, 2018 |
| Last update date |
Mar 25, 2019 |
| Contact name |
Yuanyuan R Li |
| E-mail(s) |
ylgrk@missouri.edu
|
| Phone |
5738848975
|
| Organization name |
University of Missouri
|
| Department |
Ob&Gyn
|
| Street address |
University of Missouri School of Medicine, One Hospital Dr., Medical Sciences Building, NW508, Medical Sciences Building, NW508, Medical Sciences Building, M659
|
| City |
Columbia |
| State/province |
MO |
| ZIP/Postal code |
65212 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (5)
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| Relations |
| BioProject |
PRJNA454438 |
| SRA |
SRP144174 |
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