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Series GSE168088 Query DataSets for GSE168088
Status Public on Jul 06, 2022
Title Sox8 reprogram ectoderm into ear vesicles and auditory neurons [smartseq2]
Organism Gallus gallus
Experiment type Expression profiling by high throughput sequencing
Summary The vertebrate inner ear arises from a pool of progenitors with the potential to give rise to all the sense organs and cranial ganglia of the head1-6. Here we explore the molecular mechanisms that control ear specification from these progenitors. Using a multi-omics approach combined with loss-of-function experiments we identify a core transcriptional circuit that imparts ear identity, along with non-coding elements that integrate this information. This analysis places the transcription factor Sox8 at the top of the ear determination network. Introducing Sox8 into cranial ectoderm not only converts non-ear cells into ear progenitors, but also activates the cellular programmes for ear morphogenesis and neurogenesis. Thus, Sox8 emerges as a master regulator of ear identity and may be a key factor for sense organ cell reprogramming.
 
Overall design Chick embryos were electroporated at head fold stages with Pax2E1-EGFP reporter constructs. Embryos were grown at 38°C until the desired somite stages (ss8-9, ss11-12, ss14-15). Heads were cut rostral to the first somite and processed for dissociation. EGFP+ single cells were collected by FACS into 96 well plates containing 2.3ul of lysis buffer. Single cell RNA libraries were generated and submitted for PE 75bp sequencing with the HiSeq4000.
 
Contributor(s) Buzzi A, Chen J, Thiery A, Delile J, Streit A
Citation(s) 35867760
Submission date Mar 02, 2021
Last update date Oct 05, 2022
Contact name Andrea Streit
Organization name Kings College London
Department Centre for Craniofacial & Regenerative Biology
Street address Guys Hospital, Great Maze Pond
City London
ZIP/Postal code SE1 9RT
Country United Kingdom
 
Platforms (1)
GPL23499 Illumina HiSeq 4000 (Gallus gallus)
Samples (858)
GSM5127945 ss8_P1A10, scRNAseq
GSM5127946 ss8_P1A11, scRNAseq
GSM5127947 ss8_P1A12, scRNAseq
This SubSeries is part of SuperSeries:
GSE168089 Sox8 reprogram ectoderm into ear vesicles and auditory neurons
Relations
BioProject PRJNA706520
SRA SRP309246

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

Supplementary file Size Download File type/resource
GSE168088_assayData.csv.gz 8.5 Mb (ftp)(http) CSV
GSE168088_gfpData.csv.gz 3.3 Kb (ftp)(http) CSV
GSE168088_onefilepercell_ss8-TSS_P2_C10_75_and_others_TVIUH.loom.gz 38.0 Mb (ftp)(http) LOOM
GSE168088_phenoData.csv.gz 2.5 Kb (ftp)(http) CSV
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Raw data are available in SRA
Processed data are available on Series record
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