GEO DataSets

(Submitter supplied) During development, stem and progenitor cells divide and transition through germ layer- and lineage-specific multipotent states to generate the diverse cell types that compose an animal. Defined changes in biomolecular composition underlie the progressive loss of potency and acquisition of lineage-specific characteristics. For example, multipotent cardiopharyngeal progenitors display multilineage transcriptional priming, whereby both the cardiac and pharyngeal muscle programs are partially active and coexist in the same progenitor cells, while their daughter cells engage in a cardiac or pharyngeal muscle differentiation path only after cell division. more...

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

1 Sample

Download data: MTX, TSV

(Submitter supplied) During development, stem and progenitor cells divide and transition through germ layer- and lineage-specific multipotent states to generate the diverse cell types that compose an animal. Defined changes in biomolecular composition underlie the progressive loss of potency and acquisition of lineage-specific characteristics. For example, multipotent cardiopharyngeal progenitors display multilineage transcriptional priming, whereby both the cardiac and pharyngeal muscle programs are partially active and coexist in the same progenitor cells, while their daughter cells engage in a cardiac or pharyngeal muscle differentiation path only after cell division. more...

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

3 Samples

Download data: MTX, TSV

(Submitter supplied) We used 10X Genomics Chromium system to profile single cells from a pool of Wild-type Ciona robusta embyros at 12 hours post fertilization (hpf)

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

1 Sample

Download data: CSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23563 GPL29327

42 Samples

Download data

(Submitter supplied) The notochord is a defining feature of the chordates. The transcription factor Brachyury (Bra) is a key regulator of notochord fate but here we show that it is not a unitary master regulator in the model chordate Ciona. Ectopic Bra expression only partially reprograms other cell types to a notochord-like transcriptional profile and a subset of notochord-enriched genes are unaffected by CRISPR Bra disruption. more...

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

9 Samples

Download data: XLSX

(Submitter supplied) We used the assay for transposon-accessible chromatin using sequencing (ATAC-seq) on FACS-purified cells to profile chromatin accessibility during early cardiopharyngeal fate choices in Ciona. We obtained ~500 million unique reads from samples comprising cardiopharyngeal mesoderm and mesenchymal cells, as well as whole Ciona embryos and genomic DNA control. We combined ATAC-seq peaks from all the replicates to generate an atlas of 56,090 unique and non-overlapping accessible regions (accessome) covering 9.25% of the C. more...

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL23563

58 Samples

Download data: BW, TXT

(Submitter supplied) scRNA-seq on 386 FACS-purified cardiopharyngeal lineage cells dissociated from stage 38 juveniles.

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

7 Samples

Download data: TXT

(Submitter supplied) To assay Tcf functions during early cardiopharyngeal specification, bulk RNAseq were performed to profile the FACS-purified cardiopharyngeal lineage cells isolated from 15 and 18hpf Ciona larvae with CRISPR/Cas9-mediated Tcf mutagenesis.

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

8 Samples

Download data: TXT

(Submitter supplied) The tadpole-type larva of Ciona has emerged as an intriguing model system for the study of neurodevelopment. The Ciona intestinalis connectome has been recently mapped, revealing the smallest central nervous system (CNS) known in any chordate, with only 177 neurons. This minimal CNS is highly reminiscent of larger CNS of vertebrates, sharing many conserved developmental processes, anatomical compartments, neuron subtypes, and even specific neural circuits. more...

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23563 GPL25724

5 Samples

Download data: CLOUPE, H5, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

1862 Samples

Download data

(Submitter supplied) Dynamic gene expression programs determine multipotent cell states and fate choices during development. Multipotent progenitors for cardiomyocytes and branchiomeric head muscles populate the pharyngeal mesoderm of vertebrate embryos, but the mechanisms underlying cardiopharyngeal multipotency and heart vs. head muscle fate choices remain elusive. The tunicate Ciona emerged as a simple chordate model to study cardiopharyngeal development with unprecedented spatio-temporal resolution. more...

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

32 Samples

Download data: TXT

(Submitter supplied) Dynamic gene expression programs determine multipotent cell states and fate choices during development. Multipotent progenitors for cardiomyocytes and branchiomeric head muscles populate the pharyngeal mesoderm of vertebrate embryos, but the mechanisms underlying cardiopharyngeal multipotency and heart vs. head muscle fate choices remain elusive. The tunicate Ciona emerged as a simple chordate model to study cardiopharyngeal development with unprecedented spatio-temporal resolution. more...

Organism:

Ciona robusta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23563

1823 Samples

Download data: TXT