NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE89314 Query DataSets for GSE89314
Status Public on Nov 21, 2016
Title Tet-dependent transcriptional programs during mESC differentiation
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Tet-family dioxygenases catalyze conversion of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC) in DNA. Here, we show that Tet3 deficiency impairs neural differentiation of mouse ESCs, resulting in skewing towards cardiac mesoderm; conversely, ectopic expression of Tet3 enhances neural differentiation and limits cardiac mesoderm specification. To determine the effects of Tet3 gain and loss on global gene expression profiles during mESC differentiation, we performed whole transcriptome RNA-sequencing (RNA-seq) analysis of (i) WT and Tet3 KO mESCs differentiating into neuroectoderm under SFEB culture (days 6 and 10); and (ii) Control and Tet3-overexpressing mESCs in non-permissive neural differentiation conditions containing FBS (days 4 and 7). Genome-wide analyses showed that Tet3 mediates cell-fate decision by inhibiting Wnt signaling.
 
Overall design Total RNA obtained from ES cells under the following conditions: (i) WT and Tet3 KO mESCs differentiating into neuroectoderm under SFEB culture (days 6 and 10); and (ii) Control and Tet3-overexpressing mESCs in non-permissive neural differentiation conditions containing FBS (days 4 and 7). Multiplexed libraries were constructed using SOLiD Total RNA-seq kit. Libraries were sequenced on the SOLiD 5500 platforms according to the manufacturer's instructions.
 
Contributor(s) Li X, Rao A
Citation(s) 27930333
Submission date Oct 30, 2016
Last update date May 15, 2019
Contact name ANJANA RAO
E-mail(s) arao@lji.org
Organization name La Jolla Institute for Allergy and Immunology
Street address 9420 Athena Circle
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
 
Platforms (1)
GPL16790 AB 5500 Genetic Analyzer (Mus musculus)
Samples (10)
GSM2365894 EB CTL 4d
GSM2365895 EB Tet3 4d
GSM2365896 EB CTL 7d
This SubSeries is part of SuperSeries:
GSE89316 Tet proteins influence the balance between neuroectodermal and mesodermal fate choice by inhibiting Wnt signaling
Relations
BioProject PRJNA351756
SRA SRP092292

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE89314_ES_Cell_RPKM.txt.gz 417.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap