Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-seq Time Course of Developing Hydra Spheroids in Hydra Medium (HM) and isotonic medium (70mM sucrose) conditions

ABSTRACT: RNA-seq Time Course of Developing Hydra Spheroids in Hydra Medium (HM) and isotonic medium (70mM sucrose) conditions

PROVIDER: PRJEB40795 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR4678170.fastq.gz	Fastqsanger.gz
	ERR4678180.fastq.gz	Fastqsanger.gz
	ERR4678190.fastq.gz	Fastqsanger.gz
	ERR4678200.fastq.gz	Fastqsanger.gz
	ERR4678210.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 352

Similar Datasets

RNA-seq Time Course of Developing Hydra Spheroids in Hydra Medium (HM) and isotonic medium (70mM sucrose) conditions

Project description:Probing the role of mechanical oscillations in Hydra regeneration by manipulating environmental osmotic properties. Single spheroids from a period of 22h were collected at 1h intervals and sequenced in both a normal hypotonic medium (HM), as well an isotonic medium (70mM sucrose).

2022-10-13 | E-MTAB-9672 | biostudies-arrayexpress

RNA-seq of Hydra body segments and regenerated Hydra animals

Project description:Positional RNA-sequencing of isolated Hydra body pieces and RNA-sequencing of fully regenerated Hydra animal was combined with RNA-sequencing of actively regenerating spheroids (see submission E-MTAB-9672) in order to elucidate the role of tissue stretching on regeneration and body pattern formation.

2022-10-13 | E-MTAB-9676 | biostudies-arrayexpress

Expression data from Hm mutant

Project description:Mouse Hammer toe (Hm) shows syndactyly. To reveal the molecular mechanisms of Hm phenotype, we performed microarray analysis to search differencially expressed genes in Hm limb.

2017-10-20 | GSE98424 | GEO

Bradyrhizobium japonicum_Bacteroids vs. Bacteria grown in HM-Arabinose

Project description:A transcriptomic analysis of bacteroids isolated from soybean plants inoculated with B. japonicum USDA 110, relative to cells cultured in HM-arabinose medium was performed and the results combined with two other transcriptomic analyses to form a reiterated pool of transcripts that define genes essential for symbiotic nitrogen fixation.

2014-11-01 | GSE60279 | GEO

The Hydra magnipapillata head regeneration transcriptome

Project description: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. Differential expression analysis revealed a set of 4,978 genes with significant changes during a 48-hour head regeneration time-course that includes many key genes in the Wnt, TGF-M-NM-2/BMP and MAP kinase pathways. We observed the differential regulation of several genes that are part of the epithelial-to-mesenchymal transition in bilaterians such as Snail. We assembled 806 novel putative lincRNAs with 176 of these are differentially expressed during the time course. We observed the coordinated transcriptional regulation of several factors that regulate the effective pool of free M-NM-2-catenin that together synergize to increase the amount of M-NM-2-catenin available for transcriptional regulation of downstream genes. The differential expression of Snail and some of its interacting regulators and downstream targets suggests that a partial-EMT-like response is involved in hydra head regeneration. This time-course is a valuable resource for the study of the transcriptional dynamics of head regeneration in hydra. mRNA profiling of regenerating head from 6 time points post bisection of Hydra head (H. magnipapillata), generated by deep sequencing, in duplicates, using Illumina HiSeq2500.

2014-12-13 | E-GEOD-64127 | biostudies-arrayexpress

Mycobacterium tuberculosis HM strain:HM

Project description:Mycobacterium tuberculosis HM strain:HM Genome sequencing and assembly

| PRJNA230410 | ENA

Gene epression profile of s-spheroids and t-spheroids differentiated from iPS cells

Project description:For definitive endoderm differentiation, iPS cells (day0) were treated with 100 ng ml-1 activin A and 3μM CHIR99021 for 1 day and 100 ng ml-1 activin A for the following two days. Definitive endoderm was subsequently treated with 3uM CHIR99021 and 500ng ml-1 FGF4 for mid/hindgut differentiation. Mid/hindgut floating spheroids (fl; t-Spheroids) were collected from culture medium from day6 to day 8. On day6, mid/hindgut cells were dissociated into single cells and seeded onto EZSPHERE plate to generate suspension spheroids(EZ; s-Spheroids). RNA of fl spheroids and EZ spheroids were extracted using QIAGEN RNeasy kit.

2022-11-15 | GSE182230 | GEO

Invasive tumors in Hydra

Project description:The molecular nature of malignant tumors is well studied in vertebrates, while their evolutionary origin remains unknown. In particular, there is no evidence for naturally occurring malignant tumors in pre-bilaterian animals, such as sponges and cnidarians. This is somewhat surprising given that recent computational studies have predicted that all metazoans are prone to develop tumors. Here we provide first evidence for naturally occurring tumors in Hydra oligactis. Histological, cellular and molecular data reveal that these tumors are transplantable and caused by differentiation arrest of female gametes. Growth of tumor cells is independent from the cellular environment. Tumor bearing polyps have significantly reduced fitness. In addition, Hydra tumors show a greatly altered transcriptome that mimics expression shifts in vertebrate cancers. Therefore, this study shows, that invasive tumors have deep roots in animal phylogeny, and that early branching animals may be informative in revealing the fundamental mechanisms of tumorigenesis. We compared four samples of Hydra oligactis tumor-bearing animals to three samples of female polyps undergoing oogenesis and six samples of female asexual control polyps

2014-06-24 | E-GEOD-56287 | biostudies-arrayexpress

Photorhabdus temperata strain:Hm | isolate:Hm

Project description:Photorhabdus temperata strain:Hm | isolate:Hm Genome sequencing and assembly

| PRJNA282823 | ENA

Hydra

Project description:Hydra sp. overview

| PRJNA544141 | ENA