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Items: 1 to 20 of 494

1.

Differential gene regulation in DAPT-treated Hydra reveals candidate direct Notch signalling targets

(Submitter supplied) In Hydra, Notch inhibition causes defects in head patterning and prevents differentiation of proliferating nematocyte progenitor cells into mature nematocytes. To understand the molecular mechanisms by which the Notch pathway regulates these processes, we performed RNA-seq and identified genes that are differentially regulated in response to 48 h of treating the animals with the Notch inhibitor DAPT. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL27013
36 Samples
Download data: FASTA, TAB
Series
Accession:
GSE184492
ID:
200184492
2.

Extracellular vesicles mediate molecular signalling during Hydra regeneration

(Submitter supplied) Recent body of evidence demonstrates that extracellular vesicles (EVs) represent the first language of cell-cell communication emerged during evolution. In aquatic environments, transferring signals between cells by EVs offer protection against degradation, allowing delivering of chemical information in high local concentrations to the target cells. The packaging of multiple signals, including those of hydrophobic nature, ensures target cells to receive the same EV-conveyed messages, and the coordination of a variety of physiological processes across cells of a single organisms, or at the population level, i.e. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL28733
2 Samples
Download data: TSV
Series
Accession:
GSE180886
ID:
200180886
3.

Oral Regeneration Is the Default Pathway Triggered by Injury in Hydra

(Submitter supplied) Animals capable of whole-body regeneration can fully restore any tissue lost due to injury. Because different types of injury may require the regeneration of different structures, transcription during whole-body regeneration needs to dynamically adapt to meet the requirements specific to any given injury. However, the regulatory mechanisms responsible for modulating the transcriptional response to injury are poorly understood at the molecular level. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL28733 GPL25712
113 Samples
Download data: BED, BW, CSV, MATRIX, RDATA
Series
Accession:
GSE152994
ID:
200152994
4.

Genome-wide maps RNA Polymerase II and Histone H3 of Hydra vulgaris

(Submitter supplied) Hydra have a remarkable ability to regenerate after bisection or dissociation. Thus, Hydra is a unique model for studying the mechanisms underlying stemness and self renewal biology. The regeneration of Hyrda offers unique way to investigate molecular mechanisms leading to the establishment of organizer activity during animal development. Here we have investigated the genome-wide occurrence of RNA Polymearse II and Histone H3 in Hydra vulgaris.
Organism:
Hydra vulgaris
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL19432
6 Samples
Download data: BED
Series
Accession:
GSE63414
ID:
200063414
5.

Integrative analysis of Hydra head regeneration reveals activation of distal enhancer-like elements

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Hydra vulgaris
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform:
GPL25713
101 Samples
Download data: BIGWIG
Series
Accession:
GSE127280
ID:
200127280
6.

Integrative analysis of Hydra head regeneration reveals activation of distal enhancer-like elements [RNA-seq]

(Submitter supplied) The cnidarian model organism Hydra has long been studied for its remarkable ability to regenerate its head, which is controlled by a head organizer located near the hypostome. Cnidarians and bilaterians diverged about 600 millions years ago but the gene contents of species of both phyla are surprisingly similar despite divergent morphologies and functions. While little is known about the role of cis-regulatory elements in cnidarians, understanding gene regulatory mechanisms in cnidarians can potentially shed light on metazoan evolution. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25713
40 Samples
Download data: TXT
Series
Accession:
GSE127279
ID:
200127279
7.

Integrative analysis of Hydra head regeneration reveals activation of distal enhancer-like elements [ChIP-seq]

(Submitter supplied) The cnidarian model organism Hydra has long been studied for its remarkable ability to regenerate its head, which is controlled by a head organizer located near the hypostome. Cnidarians and bilaterians diverged about 600 millions years ago but the gene contents of species of both phyla are surprisingly similar despite divergent morphologies and functions. While little is known about the role of cis-regulatory elements in cnidarians, understanding gene regulatory mechanisms in cnidarians can potentially shed light on metazoan evolution. more...
Organism:
Hydra vulgaris
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL25713
37 Samples
Download data: BIGWIG
Series
Accession:
GSE127278
ID:
200127278
8.

Integrative analysis of Hydra head regeneration reveals activation of distal enhancer-like elements [ATAC-seq]

(Submitter supplied) The cnidarian model organism Hydra has long been studied for its remarkable ability to regenerate its head, which is controlled by a head organizer located near the hypostome. Cnidarians and bilaterians diverged about 600 millions years ago but the gene contents of species of both phyla are surprisingly similar despite divergent morphologies and functions. While little is known about the role of cis-regulatory elements in cnidarians, understanding gene regulatory mechanisms in cnidarians can potentially shed light on metazoan evolution. more...
Organism:
Hydra vulgaris
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL25713
24 Samples
Download data: BIGWIG
Series
Accession:
GSE127277
ID:
200127277
9.

PIWI-piRNA pathway mediated transposon repression in Hydra somatic stem cells

(Submitter supplied) Transposable elements (TEs) can damage genomes, thus organisms employ a variety of mechanisms to repress TE expression. The PIWI-piRNA pathway is a small RNA pathway that represses TE expression in the germline of animals. Here we explore the function of the pathway in the somatic stem cells of Hydra, a long-lived freshwater cnidarian. Hydra have three stem cell populations, all of which express PIWI proteins; endodermal and ectodermal epithelial stem cells are somatic, whereas the interstitial stem cells have germline competence. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL25712 GPL27013
12 Samples
Download data: TXT
Series
Accession:
GSE135440
ID:
200135440
10.

Generic and context-dependent gene modulations during Hydra whole body regeneration

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19551
153 Samples
Download data
Series
Accession:
GSE111534
ID:
200111534
11.

Gene expressions in the three Hydra stem cell populations

(Submitter supplied) Transgenics Hydra expressing eGFP in interstitial stem-cells (ISC), gastrodermal epithelial cells (gESC) or epidermal epithelial cells (eESC) were used to sort these populations of stem cells by Fluorescence activated cell sorting (FACS) and perform RNA-seq on enriched populations. The processed data deposited here are also accessible in a graphical manner from a blast-based web interface available at https://hydratlas.unige.ch
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19551
22 Samples
Download data: CSV, FASTA
Series
Accession:
GSE111533
ID:
200111533
12.

Gene expression after depletion of fast cycling cells by heat shock, hydroxyurea, or colchicine treatment in the Sf-1 thermosensitive Hydra strain.

(Submitter supplied) Treatments targetting fast cycling cells were applied to Hydra in order to: 1. identify compensatory gene expression behaviours after loss of neurogenesis, 2. improve the detection of cell-type expression for all transcripts in Hydra, together with the dataset entitled “Gene expressions in the three Hydra stem cell populations”. The processed data deposited here are also accessible in a graphical manner from a blast-based web interface available at https://hydratlas.unige.ch
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19551
32 Samples
Download data: CSV, FASTA
Series
Accession:
GSE111532
ID:
200111532
13.

Gene expression time course analysis during apical and basal regeneration in Hydra

(Submitter supplied) After section, Hydra regenerate each missing part within 2 to 3 days. This study was designed to allow tracking of gene expression levels during apical and basal regeneration and to compare these different regenerative contexts systematically. We determine that transient early genetic events are generic, i.e. that modulations in gene expression have analogous directions, magnitudes and durations whatever the level along the central body column and orientation of the amputation plane. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19551
99 Samples
Download data: CSV, FASTA
Series
Accession:
GSE111531
ID:
200111531
14.

Stem cell differentiation trajectories in Hydra resolved at single cell resolution

(Submitter supplied) The adult Hydra polyp continuously renews all of its cells using three separate stem cell populations but the genetic pathways enabling these dynamic tissue properties are not well understood. We used Drop-seq to sequence 24,985 Hydra cells and identified the molecular signatures of a broad spectrum of cell states, from stem cells to terminally differentiated cells. We constructed differentiation trajectories for each cell lineage and identified the transcription factors expressed along these trajectories, thus creating a comprehensive map of all developmental lineages in the adult animal. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL25713 GPL25712
24 Samples
Download data: BED, TXT
Series
Accession:
GSE121617
ID:
200121617
15.

The Hydra magnipapillata head regeneration transcriptome

(Submitter supplied) Hydra has long been studied for its remarkable ability to regenerate its head. Previous studies focusing on molecular mechanisms of axial patterning and head regeneration using a candidate gene approach have revealed a central role for the canonical Wnt pathway. We performed a global gene expression analysis during Hydra magnipapillata head regeneration using RNA-seq to identify additional genes that are transcriptionally regulated during the regeneration of the head organizer in hydra. more...
Organism:
Hydra vulgaris
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19551
12 Samples
Download data: TXT
Series
Accession:
GSE64127
ID:
200064127
16.

Analysis of gene expression in MyD88-Knockdown-Hydra vulgaris (AEP)

(Submitter supplied) Analysis of MyD88 as a putative mediator in host-microbe-interactions
Organism:
Hydra vulgaris
Type:
Expression profiling by array
Platform:
GPL14623
11 Samples
Download data: TXT
Series
Accession:
GSE32383
ID:
200032383
17.

Illumina HiSeq 1500 (Hydra vulgaris)

Organism:
Hydra vulgaris
Download data
Platform
Accession:
GPL29541
ID:
100029541
18.

Illumina NovaSeq 6000 (Hydra vulgaris)

Organism:
Hydra vulgaris
2 Series
26 Samples
Download data
Platform
Accession:
GPL28733
ID:
100028733
19.

Illumina HiSeq 2000 (Hydra vulgaris)

Organism:
Hydra vulgaris
2 Series
42 Samples
Download data
Platform
Accession:
GPL27013
ID:
100027013
20.

Illumina NextSeq 500 (Hydra vulgaris)

Organism:
Hydra vulgaris
5 Series
116 Samples
Download data
Platform
Accession:
GPL25713
ID:
100025713
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