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| Status |
Public on May 11, 2024 |
| Title |
Muscle group specific transcriptomic and DNA methylation differences related to developmental patterning influence FSHD [expression] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Muscle groups throughout the body are specialized in function and are specified during development by position specific gene regulatory networks. In developed tissue, myopathies affect muscle groups differently. Facioscapulohumeral muscular dystrophy, FSHD, affects upper body and tibialis anterior (TA) muscles earlier and more severely than others such as quadriceps. To investigate an epigenetic basis for susceptibility of certain muscle groups to disease, we perform DNA methylation and RNA sequencing on primary patient derived myoblasts from TA and quadricep for both control and FSHD2 as well as RNA-seq for myoblasts from FSHD1 deltoid, bicep and TA over a time course of differentiation. We find that TA and quadricep retain methylation and expression differences in transcription factors that are key to muscle group specification during embryogenesis. FSHD2 patients have differences in DNA methylation and expression related to SMCHD1 mutations and FGF signaling. Genes induced specifically in FSHD are more highly expressed in more commonly affected muscle groups. We find a set of genes that distinguish more susceptible muscle groups including developmental associated TFs and genes involved in WNT signaling. Adult muscle groups therefore retain transcriptional and DNA methylation differences associated with development, which may contribute to susceptibility in FSHD.
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| Overall design |
Time-course of primary FSHD2 myoblasts from tibialis anterior and quadricep, control myoblasts from tibialis anterior and quadricep, FSHD1 myoblasts from bicep, deltoid and tibialis anterior
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| Contributor(s) |
Williams KE, Mortazavi AS |
| Citation missing |
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| Submission date |
May 12, 2021 |
| Last update date |
May 11, 2024 |
| Contact name |
Ali Mortazavi |
| E-mail(s) |
ali.mortazavi@uci.edu
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| Organization name |
UC Irvine
|
| Street address |
2300E Biological Sciences 3
|
| City |
Irvine |
| State/province |
CA |
| ZIP/Postal code |
92697 |
| Country |
USA |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (44)
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| This SubSeries is part of SuperSeries: |
| GSE174370 |
Muscle group specific transcriptomic and DNA methylation differences related to developmental patterning influence FSHD |
|
| Relations |
| BioProject |
PRJNA729252 |
| SRA |
SRP319411 |
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