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Links from GEO DataSets

Items: 20

1.

Transcriptomic profiling of sea anemone tissues

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL23029 GPL23802
8 Samples
Download data: MTX, TSV
Series
Accession:
GSE154477
ID:
200154477
2.

A time course of sea anemone development

(Submitter supplied) A diversity of life cycle stages processed into single-cell RNA-seq libraries in order to characterize cell type diversity and relationships
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL29226 GPL23029
16 Samples
Download data: CSV, GTF, MTX, TSV
Series
Accession:
GSE200198
ID:
200200198
3.

Sea anemone mesentery muscle profiling [bulk RNA-seq]

(Submitter supplied) Isolated mesenteries from MHC::mCherry Adults were used to generate FACS-sorted RNA sequencing libraries in order to characterize gene use in Cnidarian smooth muscle. Transgenic mCherry expressing cells are compared to the non-expressing cells of the surrounding tissues, and up-regulated genes within the muscle cell population can be identified as important muscle-related gene products.
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23802
4 Samples
Download data: TXT
Series
Accession:
GSE154476
ID:
200154476
4.

Sea anemone single cell tissue profiling [scRNA-seq]

(Submitter supplied) Sub-adult tissue pieces were processed into single cell RNA sequencing libraries in order to catalog spatial information and cell type distribution
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23029
4 Samples
Download data: MTX, TSV
Series
Accession:
GSE154105
ID:
200154105
5.

An ancestral Wnt-Brachyury feedback loop and vertebrate-specific recruitment of mesoderm-determining target genes revealed by comparative Brachyury target screens

(Submitter supplied) Transcription factor brachyury plays a key role during mesoderm development in vertebrates. In this study we study study the effect of this transcription factor in the purple sea urchin S. purpuratus.
Organism:
Strongylocentrotus purpuratus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL20965
10 Samples
Download data: BED, TSV
Series
Accession:
GSE198320
ID:
200198320
6.

Graded FGF activity patterns distinct cell types within the apical sensory organ of the sea anemone Nematostella vectensis

(Submitter supplied) Bilaterian animals have evolved complex sensory organs comprised of distinct cell types that function coordinately to sense the environment. Each sensory unit has a defined architecture built from component cell types, including sensory cells, non-sensory support cells, and dedicated sensory neurons. Whether this characteristic cellular composition is present in the sensory organs of non-bilaterian animals is unknown. more...
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29855
1 Sample
Download data: H5
Series
Accession:
GSE213278
ID:
200213278
7.

Sequentially acting Sox transcription factors in neural lineage development [microarray]

(Submitter supplied) We report sequential binding but unique functions of different Sox transcription factors during distinct stages of neural differentiation We used microarray to examine the molecular function of Sox3 in neural progenitor cells.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL14757
6 Samples
Download data: CEL
Series
Accession:
GSE33061
ID:
200033061
8.

Sequentially acting Sox transcription factors in neural lineage development [RNA-seq]

(Submitter supplied) We report sequential binding but unique functions of different Sox transcription factors during distinct stages of neural differentiation
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11002
6 Samples
Download data: BED, TXT
Series
Accession:
GSE33060
ID:
200033060
9.

Sequentially acting Sox transcription factors in neural lineage development [ChIP-seq]

(Submitter supplied) We report sequential binding but unique functions of different Sox transcription factors during distinct stages of neural differentiation
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL11002 GPL9250 GPL13112
15 Samples
Download data: BED
Series
Accession:
GSE33059
ID:
200033059
10.

Sequentially acting Sox transcription factors in neural lineage development

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Expression profiling by array
4 related Platforms
27 Samples
Download data: BED, CEL
Series
Accession:
GSE33024
ID:
200033024
11.

Spatial transcriptome of Nematostella vectensis apical organ reveals its molecular signature and associated cells

(Submitter supplied) The spatial transcriptome data has allowed us to explore the differential gene expression among the oral-aboral domains and provided new insights into the apical organ signalling pathways for future mechanistic studies and genes associated with oral/aboral differentiation. This resource identifies numerous candidates for elucidating the functional role of the apical organ and to address the evolution of the metazoan larval nervous system.
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29226
10 Samples
Download data: TXT
Series
Accession:
GSE159166
ID:
200159166
12.

Cnidarian cell type diversity revealed by whole-organism single-cell RNA-seq analysis

(Submitter supplied) We performed single-cell transcriptome analysis (using MARS-seq) in the cnidarian Nematostella vectensis. Additionally we performed bulk ATAC-seq experiments on wild-type specimens, as well as ELAV::mOrange reporter transgenic lines (separating ELAV+ and ELAV- cell populations, representing neurons and non-neurons, respectively).
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL23029
8 Samples
Download data: BW, TXT, XLSX
Series
Accession:
GSE95723
ID:
200095723
13.

Antagonistic BMP–cWNT signaling in the cnidarian Nematostella vectensis reveals insight into the evolution of mesoderm

(Submitter supplied) Using forward transcriptomics, we show that beta-catenin/Tcf signaling and BMP2/4 signaling provide differential inputs into the cnidarian endomesodermal gene regulatory network (GRN) at the onset of gastrulation (24 h postfertilization) in N. vectensis. Surprisingly, beta-catenin/Tcf signaling and BMP2/4 signaling regulate a subset of common downstream target genes in the GRN in opposite ways, leading to the spatial and temporal differentiation of fields of cells in the developing embryo. more...
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23802
9 Samples
Download data: TXT
Series
Accession:
GSE101604
ID:
200101604
14.

Single cell analysis of the ventricular-subventricular zone reveals signatures of dorsal and ventral adult neurogenic lineages.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL21103 GPL24247
5 Samples
Download data: MTX, RDS, TSV
Series
Accession:
GSE165555
ID:
200165555
15.

Single cell analysis of the ventricular-subventricular zone reveals signatures of dorsal and ventral adult neurogenic lineages. [single whole-cell]

(Submitter supplied) Purpose: While great progress has been made in understanding the differences in regional stem cell potential using viral and genetic lineage tracing strategies, the core molecular heterogeneity that underlies these regional differences is largely unknown. Methods: Here we present a single whole-cell sequencing dataset of microdissected adult hGFAP:GFP mouse V-SVZ. Four samples were (two samples from male mice, two samples from female mice) multiplexed & combined using MULTI-Seq barcodes (McGinnes et al. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
1 Sample
Download data: MTX, RDS, TSV, XLSX
Series
Accession:
GSE165554
ID:
200165554
16.

Single cell analysis of the ventricular-subventricular zone reveals signatures of dorsal and ventral adult neurogenic lineages. [single nucleus sequencing]

(Submitter supplied) Purpose: While great progress has been made in understanding the differences in regional stem cell potential using viral and genetic lineage tracing strategies, the core molecular heterogeneity that underlies these regional differences is largely unknown. Methods: Here we present a single nucleus sequencing dataset of four microdissected regions of adult CD1 wild type mouse ventricular-subventricular zones (V-SVZ). more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
4 Samples
Download data: MTX, RDS, TSV
Series
Accession:
GSE165551
ID:
200165551
17.

Single cell enhancer activity distinguishes GABAergic and cholinergic lineages in embryonic mouse basal ganglia

(Submitter supplied) Enhancers integrate transcription factor signaling pathways that drive cell fate specification in the developing brain. We paired enhancer labeling and single-cell RNA-sequencing (scRNA-seq) to delineate and distinguish specification of neuronal lineages in mouse medial, lateral, and caudal ganglionic eminences (MGE, LGE, and CGE) at embryonic day (E)11.5. We show that scRNA-seq clustering using transcription factors improves resolution of regional and developmental populations, and that enhancer activities identify specific and overlapping GE-derived neuronal populations. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
2 Samples
Download data: CSV, TXT
Series
Accession:
GSE199352
ID:
200199352
18.

Early and late response of Nematostella vectensis transcriptome to heavy metals

(Submitter supplied) Environmental contamination from heavy metals poses a global concern for the marine environment, as heavy metals are passed up the food chain and persist in the environment long after the pollution source is contained. Cnidarians, dating back to 700 million years ago, play an important role in shaping marine ecosystems, but environmental pollution profoundly affects their vitality. Among the cnidarians, the sea anemone Nematostella vectensis is an advantageous model for addressing questions in molecular ecology and toxicology as it tolerates extreme environments and its genome has been published. more...
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17090
16 Samples
Download data: TXT
Series
Accession:
GSE58769
ID:
200058769
19.

The Early Origins and Evolution of microRNAs and piRNAs in Animals

(Submitter supplied) We explored the potential for small RNA biology in organisms that diverged basal to Bilateria, identifying both miRNAs and piRNAs in Nematsotella and Amphimedon
Organism:
Monosiga brevicollis; Amphimedon queenslandica; Nematostella vectensis; Trichoplax adhaerens
Type:
Non-coding RNA profiling by high throughput sequencing
4 related Platforms
17 Samples
Download data: TXT
Series
Accession:
GSE12578
ID:
200012578
20.

Cyclic dinucleotide stimulation of Nematostella vectensis

(Submitter supplied) In mammals, the cGAS-cGAMP-STING pathway is crucial for sensing viral infection and initiating an anti-viral type I interferon response. cGAS and STING are highly conserved genes that originated in bacteria and are present in most animals. By contrast, interferons only emerged in vertebrates; thus, the function of STING in invertebrates is unclear. Here, we use the STING ligand 2'3'-cGAMP to activate immune responses in a model cnidarian invertebrate, the starlet sea anemone Nematostella vectensis. more...
Organism:
Nematostella vectensis
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL29855 GPL29226
33 Samples
Download data: TXT
Series
Accession:
GSE175984
ID:
200175984

Supplemental Content

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