|
| Status |
Public on Feb 21, 2015 |
| Title |
Questioned validity of GEDDs in DS |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Recently, in studies examining fibroblasts obtained from the tissues of one set of monozygotic twins (i.e. fetuses derived from the same egg) discordant for trisomy 21 (Down syndrome; DS), Letourneau et al. reported the presence of a defined pattern of dysregulation within specific genomic domains they referred to as Gene Expression Dysregulated Domains (GEDDs). GEDDs were described as alternating segments of increased or decreased gene expression affecting all chromosomes. Strikingly, GEDDs in fibroblasts were largely conserved in induced pluripotent cells (iPSCs) generated from the twin’s fibroblasts as well as in fibroblasts from the Ts65Dn mouse model of DS. Our recent analysis failed to find GEDDs. We reexamined human iPSCs RNAseq data from Letourneau et al., and data from this same research group published earlier examining iPSCs from the same monozygotic twins. In addition, an independent analysis of RNAseq data from Ts65Dn fibroblasts also failed to confirm presence of GEDDs. Our analysis questions the validity of GEDDs in DS.
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| |
|
| Overall design |
Ts65Dn mouse model of DS
|
| |
|
| Contributor(s) |
Do LH, Singhal N, Mobley WC |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Jan 09, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Long H Do |
| E-mail(s) |
longdo@berkeley.edu
|
| Organization name |
University of California, San Diego, School of Medicine
|
| Department |
Neuroscience
|
| Lab |
William Mobley
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093-0649 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
|
| Samples (6)
|
|
| Relations |
| BioProject |
PRJNA272141 |
| SRA |
SRP051977 |
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