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Series GSE64840 Query DataSets for GSE64840
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.
Overall design Ts65Dn mouse model of DS
Contributor(s) Do LH, Singhal N, Mobley WC
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Submission date Jan 09, 2015
Last update date May 15, 2019
Contact name Long H Do
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)
GSM1581418 2N MEFs Rep1
GSM1581419 2N MEFs Rep2
GSM1581420 2N MEFs Rep3
BioProject PRJNA272141
SRA SRP051977

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Supplementary file Size Download File type/resource
GSE64840_2N_Ts65Dn_MEFs.gene_exp.diff.gz 787.2 Kb (ftp)(http) DIFF
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Raw data are available in SRA
Processed data are available on Series record

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