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GEO Series: GSE50593

Title: Coordinated genomic control of ciliogenesis and cell movement by Rfx2

Summary

We have performed a systems-level analysis of the RFX/Daf-19 family transcription factor, Rfx2. Using a combination of high-throughput sequencing of Rfx2-regulated transcripts and chromosomal binding sites, we provide a comprehensive accounting of the target genes by which Rfx2 controls ciliogenesis and cilia beating in vertebrates.


Contributors: Taejoon Kwon, Mei-I Chung, Rakhi Gupta, Julie Baker, Edward Marcotte, John Wallingford

Experiment Type: RNA-seq: two biological replicates for control and RFX2 knockdown by morpholino injection, ChIP-seq: RFX2-GFP pulldown with GFP antibody, GFP only expression used as control

Experiment Reagents: rfx2 MO1, Tg(GFP-rfx2).

Article: Xenbase, PubMed

Source: NCBI GEO, Xenbase FTP

Samples: (DEG = Differentially Expressed Genes; GSM = GEO Sample Number)
Sample View GSMs Assay Type
input WE - NF20 GSM1224377  ChIP-Seq
Background: Xla.Outbred
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 20  
   rfx2 WE - NF20 GSM1224376  ChIP-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(GFP-rfx2) rfx2.L NF stage 3 (4-cell) blastomere V1
Conditions:
Tissue Assay Stages ChIP Antibody
embryo NF stage 20 GFP Ab15
animal cap - NF20 GSM1224372  GSM1224373  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
explant   NF stage 10 animal cap
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 20  
   animal cap + rfx2 MO - NF20 DEG GSM1224374  GSM1224375  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
morpholino injection rfx2 MO1 rfx2.S rfx2.L NF stage 3 (4-cell) animal blastomere
explant   NF stage 10 animal cap
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 20  
Select All DEG      Select All 
Xtr   
Xla 

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