Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Oceaniradius stylonematis strain:StC1

ABSTRACT: Oceaniradius stylonematis strain:StC1 Genome sequencing and assembly

PROVIDER: PRJNA454767 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

RNA Seq analysis of Mefs Isolated from STC1+/+ and STC1-/- mice

Project description:Evaluation of X-linked gene expression in MEFs isolated from STC1 wild type and knock out mice X chromosome inactivation (XCI) is initiated in cis by the Xist RNA, which coats the inactive X chromosome (Xi) from which it is produced. We performed a large-scale RNA interference screen to identify trans-acting XCI factors (XCIFs) that comprise regulators of cell signaling and transcription. We find that the XCIFs promote Xist expression and/or localization to the Xi. One of the XCIFs, STC1, is a glycoprotein found in both the cytoplasm and nucleus and whose function is poorly understood. A homozygous mouse knockout of STC1 has a defect in XCI but surprisingly is phenotypically normal. We performed transcriptome profiling (RNA-Seq) experiments to determine whether the expression levels of X-encoded genes were elevated in Stc1-/- female MEFs. In these experiments, RNA was prepared from three independent cultures of Stc1+/+ or Stc1-/- female MEFs. RNA samples were processed and amplified followed by deep sequencing. The similarity of X-linked gene expression between Stc1+/+ and Stc1-/- MEFs was statistically significant. The vast majority of autosomal genes were also expressed at comparable levels in Stc1+/+ and Stc1-/- MEFs. Sequenced mRNA isolated from the STC1+/+ or STC1-/- MEFs.

2014-07-29 | E-GEOD-47395 | biostudies-arrayexpress

RNA Seq analysis of Mefs Isolated from STC1+/+ and STC1-/- mice

2014-07-29 | GSE47395 | GEO

Mass spectrometry analysis of proteins interacting with STC1

Project description:identify the potential partners of STC1 at the protein level, we performed mass spectrometry on B16-F10 tumor cells stably expressing FLAG-tagged STC1.

2020-12-23 | PXD023251 | Pride

STC1 promotes temozolomide resistance of glioblastoma through STAT3-mediated regulation of MGMT.

Project description:Resistance to temozolomide (TMZ) is one of the major challenges for glioblastoma (GBM) therapy while the underlying mechanisms demand further exploration. Tumor-repopulating cells (TRCs) have been proven to be involved in chemotherapy resistentce. We first enriched GBM TRCs by culturing DBTRG cells in 3D soft fibrin gels and performed RNA-seq. By anlyzing the differentially expressed genes (DEGs) between TRCs and 2D conventionally cultured DBTRG cells, we identified the glycoprotein gene Stanniocalcin-1 (STC1), which is highly expressed in TRCs. Our analyses using patient data from CGGA disclosed that high STC1 expression was associated with poor prognosis, high glioma grade and TMZ therapy resistance. Both our in vitro and in vivo expreriments showed that overexpression of STC1 promoted while knockdown of STC1 inhibited GBM cell proliferation and TMZ resistance. Our mechanistic study revealed that STC1 elevated the phosphoralation of STAT3 to increase MGMT expression, which inhibited the TMZ-induced DNA damage and apoptosis. Our study provides rationale for targeting STC1 to overcome TMZ resistance.

2024-04-30 | GSE261684 | GEO

Stc1-expressing myofibroblasts are a developmentally distinct lineage cleared through apoptosis in the neonatal lung

Project description:Lung myofibroblasts are necessary for early postnatal alveolar growth. The unique contributions of individual myofibroblast lineages to alveolar development is unresolved by existing genetic tools. We generated a Stc1CreERT2 mouse line that labels the developmentally transient secondary crest myofibroblasts (SCMFs), distinguishing them from alveolar duct myofibroblasts (DMF) and smooth muscle. SCMFs expand through clonal proliferation of Stc1-expressing progenitors and are cleared by apoptosis. Deleting the apoptosis effectors Bax and Bak1 in the Stc1-lineage prevented SCMF clearance during alveologenesis. Single-cell RNA sequencing showed that surviving Stc1-lineage cells lose myofibroblast identity while coexpressing SCMF and DMF markers. Embryonic lineage tracing identified distinct progenitors for SCMFs and DMFs, and genetic activation of Hedgehog (Hh) or Wnt signaling pathways failed to interconvert these lineages. These findings establish Stc1-lineage SCMFs as a discrete, developmentally divergent population, and define their life cycle independent of other myofibroblast lineages.

2025-11-19 | GSE309972 | GEO

Genome-wide analysis of mouse 4T1 tumor cells derived clone (4T1ch9) gene expression subjected to transduction with STC1-specific or non-targeting shRNA lentiviral particles

Project description:Analysis of genes regulated by STC1 down-regulation in mouse 4T1 derived clone, 4T1ch9. STC1 expression is associated with tumor growth and metastasis. This study looks at genes affected when STC1 expression is down-regulated by STC1 shRNA.

2014-11-01 | GSE55334 | GEO

Genome-wide analysis of mouse 4T1 tumor cells derived clone (4T1ch9) gene expression subjected to transduction with STC1-specific or non-targeting shRNA lentiviral particles

2014-11-01 | E-GEOD-55334 | biostudies-arrayexpress

Next-generation sequencing analysis of macrophage engulfing control or STC1-OE tumor corpses related transcriptomes

Project description:Purpose: To explore the transcriptomes changes in macrophage during long term engulfment of control or STC1-OE tumor corpses.

2020-11-20 | GSE161813 | GEO

Genome-wide DNA methylation motifs of Alicyclobacillus acidocaldarius subsp. acidocaldarius strain KCTC 1825 determined by PacBio HiFi sequencing

Project description:PacBio HiFi sequencing was used to characterize genome-wide DNA base modifications and methylation motifs in Alicyclobacillus acidocaldarius subsp. acidocaldarius strain KCTC 1825 (DSM 446). Base-modification kinetics were mapped to the complete genome assembly and analyzed for m6A and m4C signals. The processed dataset provides per-base modification calls, motif-associated calls, and motif summaries linked to the public genome assembly and SRA run.

2026-07-20 | GSE338709 | GEO

Alginate metabolic pathways of the strain C42 associated with Sargassum

Project description:Based on the genome sequencing and gene annotation, we analyzed the alginate lyases and other genes related to alginate metabolism of strain Vibrio sp. C42, with the highest alginate-degrading activity. Combined with proteome measurement, we proposed its alginate metabolic pathways.

2026-06-04 | PXD037554 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data