Click here to close Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly. We suggest using a current version of Chrome, FireFox, or Safari.
Return to search results

GEO Series: GSE160777

Title: A temporally resolved transcriptome for developing “Keller” explants of the Xenopus laevis dorsal marginal zone

Summary

Explanted tissues from vertebrate embryos reliably develop in culture and have provided essential paradigms for understanding embryogenesis, from early embryological investigations of induction, to the extensive study of Xenopus animal caps, to the current studies of mammalian gastruloids. Cultured explants of the Xenopus dorsal marginal zone (“Keller” explants) serve as a central paradigm for studies of convergent extension cell movements, yet we know little about the global patterns of gene expression in these explants. In an effort to more thoroughly develop this important model system, we provide here a time-resolved bulk transcriptome for developing Keller explants.


Contributors: Anneke Kakebeen, Anneke Kakebeenm, Robert Huebner, Asako Shindo, Kujin Kwon, Taejoon Kwon, Andrea Wills, John Wallingford

Experiment Type: RNA-Seq analysis of a timecourse of dorsal marginal zone explants from Xenopus embryos from stage 11 to stage 18.

Article: XB-ART-57664

Source: NCBI GEO, Xenbase FTP

Samples: (DEG = Differentially Expressed Genes; GSM = GEO Sample Number)
Sample View GSMs Assay Type
animal cap explant - NF11 GSM4879085  GSM4879097  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 animal cap
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 11  
dorsal marginal zone explant - NF11 GSM4879076  GSM4879088  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 11  
dorsal marginal zone explant - NF11.5 GSM4879075  GSM4879087  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 11.5  
dorsal marginal zone explant - NF12 GSM4879078  GSM4879090  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 12  
dorsal marginal zone explant - NF12.5 GSM4879077  GSM4879089  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 12.5  
dorsal marginal zone explant - NF13 GSM4879079  GSM4879091  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 13  
dorsal marginal zone explant - NF14 GSM4879080  GSM4879092  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 14  
dorsal marginal zone explant - NF15 GSM4879081  GSM4879093  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 15  
dorsal marginal zone explant - NF16 GSM4879082  GSM4879094  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 16  
dorsal marginal zone explant - NF17 GSM4879083  GSM4879095  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 17  
dorsal marginal zone explant - NF18 GSM4879084  GSM4879096  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 dorsal marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
dorsal marginal zone NF stage 18  
ventral marginal zone explant - NF11 GSM4879086  GSM4879098  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10.5 ventral marginal zone
Conditions:
Tissue Assay Stages ChIP Antibody
ventral marginal zone NF stage 11  
Select All 
Xtr   
Xla 

Return to search results