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GEO Series: GSE59309

Title: Multicilin drives centriole biogenesis via E2f proteins

Summary

Biochemistry suggests e2f4 forms a complex with the coiled-coiled protein multicilin (MCIDAS), a protein that is necessary and sufficient to specify multiciliated cells in vertebrates. Here, we performed RNAseq on Xenopus laevis ectoderm in the presence of multicilin alone or multicilin and a dominant-negative e2f4 construct. We also performed ChIPseq on e2f4 in the presence or absence of multicilin. Taken together, these data demonstrate how multicilin affects e2f4 genomic targets and their downstream transcription.


Contributors: Ian Quigley, Lina Ma, Chris Kintner

Experiment Type: RNAseq: misexpression of multicilin-HGR +/- dominant-negative e2f4 messenger RNAs in X. laevis animal caps, multicilin induced with dexamethasone at mid-stage 11 and harvested at 3 timepoints (3, 6, and 9 hours after induction, roughly corresponding to stages 13, 16, and 18) with 3 biological replicates. ChIPseq: misexpression of e2f4-GFP +/- multicilin-HGR messenger RNAs in X. laevis animal caps, multicilin induced at mid-stage 11 and harvested at one timepoint (6 hours after induction, roughly corresponding to stage 16), immunoprecipitated with anti-GFP and sequenced; 2 biological replicates. Background was input prior to IP.

Experiment Reagents: dexamethasone, Tg(e2f4-GFP), Tg(mcidas-GR),

Article: XB-ART-49750, PubMed

Source: NCBI GEO, Xenbase FTP

Samples: (DEG = Differentially Expressed Genes; GSM = GEO Sample Number)
Sample View GSMs Assay Type
input animal cap - NF16 GSM1434791  ChIP-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(e2f4-GFP) e2f4.L NF stage 2 (2-cell) blastomere
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 16  
   e2f4 animal cap - NF16 GSM1434789  ChIP-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(e2f4-GFP) e2f4.L NF stage 2 (2-cell) blastomere
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 16 GFP Ab5
input animal cap + mcidas - NF16 GSM1434792  ChIP-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(e2f4-GFP) e2f4.L NF stage 2 (2-cell) blastomere
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 16  
   e2f4 animal cap + mcidas - NF16 GSM1434790  ChIP-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(e2f4-GFP) e2f4.L NF stage 2 (2-cell) blastomere
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 16 GFP Ab5
animal cap + mcidas + DNe2f4 - NF13 GSM1434774  GSM1434775  GSM1434776  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(dne2f4) e2f4.L NF stage 2 (2-cell) blastomere
mRNA injection Tg(mcidas-GR) NF stage 2 (2-cell) blastomere
explant   NF stage 10.5 animal cap
chemical dexamethasone NF stage 11
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 13  
animal cap + mcidas + DNe2f4 - NF16 GSM1434780  GSM1434781  GSM1434782  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(dne2f4) e2f4.L NF stage 2 (2-cell) blastomere
mRNA injection Tg(mcidas-GR) NF stage 2 (2-cell) blastomere
explant   NF stage 10.5 animal cap
chemical dexamethasone NF stage 11
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 16  
animal cap + mcidas + DNe2f4 - NF18 GSM1434786  GSM1434787  GSM1434788  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(dne2f4) e2f4.L NF stage 2 (2-cell) blastomere
mRNA injection Tg(mcidas-GR) NF stage 2 (2-cell) blastomere
explant   NF stage 10.5 animal cap
chemical dexamethasone NF stage 11
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 18  
animal cap + mcidas - NF13 GSM1434771  GSM1434772  GSM1434773  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(mcidas-GR) NF stage 2 (2-cell) blastomere
explant   NF stage 10 animal cap
chemical dexamethasone NF stage 11.5 animal cap
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 13  
animal cap + mcidas - NF16 GSM1434777  GSM1434778  GSM1434779  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(mcidas-GR) NF stage 2 (2-cell) blastomere
explant   NF stage 10 animal cap
chemical dexamethasone NF stage 11.5 animal cap
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 16  
animal cap + mcidas - NF18 GSM1434783  GSM1434784  GSM1434785  RNA-Seq
Background: Xla.Outbred
Manipulations:
Manipulation Type Reagent Target Gene Stage Treatment Area
mRNA injection Tg(mcidas-GR) NF stage 2 (2-cell) blastomere
explant   NF stage 10 animal cap
chemical dexamethasone NF stage 11.5 animal cap
Conditions:
Tissue Assay Stages ChIP Antibody
animal cap NF stage 18  
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